http://lod.bco-dmo.org/id/dataset/865031 eng; USA utf8 dataset Highest level of data collection, from a common set of sensors or instrumentation, usually within the same research project Biological and Chemical Oceanography Data Management Office (BCO-DMO) Unavailable 508-289-2009 WHOI MS#36 Woods Hole MA 02543 USA info@bco-dmo.org http://www.bco-dmo.org Monday - Friday 8:00am - 5:00pm For questions regarding this resource, please contact BCO-DMO via the email address provided. pointOfContact 2021-11-16 ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data ISO 19115-2:2009(E) Volume-dependent offsets in NO3- N and O isotope ratios of reference materials (Biological Nitrogen Isotope Fractionation project) 2021-11-16 publication 2021-11-16 revision Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA) 2022-01-14 publication https://doi.org/10.26008/1912/bco-dmo.865031.1 Julie Granger University of Connecticut 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: Zhou, M., Granger, J., Chang, B. X. (2022) Volume-dependent offsets in NO3- N and O isotope ratios of reference materials (Biological Nitrogen Isotope Fractionation project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2021-11-16 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.865031.1 [access date] Volume-dependent offsets in NO3- N and O isotope ratios of reference materials Dataset Description: Methods and Sampling: &lt;p&gt;&lt;strong&gt;Sampling and analytical procedures:&lt;/strong&gt;&lt;/p&gt; &lt;p&gt;&lt;u&gt;
1. Analysis of NO&lt;sub&gt;3&lt;/sub&gt;&lt;sup&gt;-&lt;/sup&gt; N and O isotope ratios with the denitrifier method&lt;/u&gt;&lt;/p&gt; &lt;p&gt;The denitrifying bacteria strains &lt;em&gt;Pseudomonas chlororaphis &lt;/em&gt;f. sp. &lt;em&gt;aureofaciens&lt;/em&gt; (ATCC 13985, Manassas, VA, USA) and &lt;em&gt;Pseudomonas. chlororaphis&lt;/em&gt; (ATCC 43928, Manassas, VA, USA) were used. Cultures were inoculated from cryo-preserved aliquots (Weigand et al., 2011) into sterile growth media prepared as originally described (Sigman et al., 2001; Casciotti et al., 2002) in 700 mL glass bottles containing 600 mL of medium, then sealed with gas-tight lids. Cells were cultured for 7-10 days at 20˚C on a rotary shaker table. Cultures were harvested by centrifugation and resuspended into 220 mL of fresh medium without potassium nitrate addition, achieving &lt;em&gt;ca.&lt;/em&gt; 3-fold concentration of the bacteria. Two mL of the cell concentrates were added to respective 20-mL headspace glass vials, capped with pre-rinsed butyl rubber septa and crimp-seals (Mcllvin and Casciotti, 2011). Vials were sparged with a water-scrubbed N&lt;sub&gt;2&lt;/sub&gt; gas stream for 6 hours to remove any N&lt;sub&gt;2&lt;/sub&gt;O produced from the residual NO&lt;sub&gt;3&lt;/sub&gt;&lt;sup&gt;-&lt;/sup&gt; in the medium. NO&lt;sub&gt;3&lt;/sub&gt;&lt;sup&gt;- &lt;/sup&gt;samples were then injected into each vial to achieve a final sample size of 10 nmoles of N. Vials were incubated inverted in order to prevent potential N&lt;sub&gt;2&lt;/sub&gt;O leakage. Following overnight incubation in the dark, &lt;em&gt;ca.&lt;/em&gt; 0.1 ml of 10 mol L&lt;sup&gt;-1&lt;/sup&gt; NaOH was injected into each vial to kill the cultures and sequester CO&lt;sub&gt;2&lt;/sub&gt; into carbonate species. The N&lt;sub&gt;2&lt;/sub&gt;O gas in the vials was extracted, purified and analyzed with a Delta V Advantage continuous flow gas chromatograph isotope ratio mass spectrometer (Thermo Fisher Scientific, Waltham, MA, USA) interfaced with a modified Thermo Fisher Scientific Gas Bench sample preparation device fronted by dual cold traps (Casciotti et al., 2002) and a GC Pal autosampler (CTC Analytics, Zwingen, Switzerland). Samples were referenced to pure N&lt;sub&gt;2&lt;/sub&gt;O injections from a common reference gas cylinder.&lt;/p&gt; &lt;p&gt;&lt;u&gt;2. Demonstration of volume effects in analyzes of NO&lt;sub&gt;3&lt;/sub&gt;&lt;sup&gt;-&lt;/sup&gt; reference materials&lt;/u&gt;&lt;/p&gt; &lt;p&gt;The reference solutions were prepared from salts into primary stocks at 200 µmol L&lt;sup&gt;-1&lt;/sup&gt; in deionized water (DIW) from a Milli‐Q&lt;sup&gt;TM&lt;/sup&gt; water purification system (EMD Millipore, Burlington, MA, USA), and stored frozen. Primary stocks of NO&lt;sub&gt;3&lt;/sub&gt;&lt;sup&gt;-&lt;/sup&gt; reference materials (IAEA-NO3 and USGS-34) were diluted in NO&lt;sub&gt;3&lt;/sub&gt;&lt;sup&gt;-&lt;/sup&gt;-deplete surface Sargasso seawater or in aged DIW to concentrations of 1, 5 and 20 µmol L&lt;sup&gt;-1&lt;/sup&gt;, corresponding to respective injection volumes of 10, 2 and 0.5 mL, in order to aliquot 10 nmoles of N analyte. The NO&lt;sub&gt;3&lt;/sub&gt;&lt;sup&gt;- &lt;/sup&gt;aliquots were injected into the sparged bacterial concentrates of either &lt;em&gt;P. chlororaphis&lt;/em&gt; or &lt;em&gt;P. aureofaciens&lt;/em&gt;. Following bacterial conversion, the resulting N&lt;sub&gt;2&lt;/sub&gt;O in the reaction vials was extracted, purified and analyzed on the isotope ratio mass spectrometer.&lt;/p&gt; Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1554474 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1554474 completed Julie Granger University of Connecticut 860-405-9094 Department of Marine Sciences 1080 Shenecossett Road Groton CT 06340 USA julie.granger@uconn.edu pointOfContact asNeeded Dataset Version: 1 Unknown Strain Solution Aliquot Date Trial Concentration Sample_volume N2O_peak_area stdev_of_N2O_peak_area delta_15N stdev_of_delta_15N delta_18O stdev_of_delta_18O Delta V Advantage continuous flow gas chromatograph isotope ratio mass spectrometer (Thermo Fisher Scientific, Waltham, MA, USA) theme None, User defined species scientific name (binomial) Nitrate sample type date replicate volume Nitrous Oxide d15N stable oxygen ration 18 featureType BCO-DMO Standard Parameters Gas Chromatograph 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. CAREER: The biological nitrogen isotope systematics of ammonium consumption and production https://osprey.bco-dmo.org/project/856532 CAREER: The biological nitrogen isotope systematics of ammonium consumption and production <p><strong>NSF Award Abstract:</strong><br /> The nitrogen (N) cycle in the marine environment is controlled by biological processes. Unfortunately, quantifying these processes and assessing their effect on the N cycle is difficult by direct measurements because of large spatial and temporal differences. Isotopic composition measurements of N provide a means to constrain these processes indirectly; however, there is still a great deal to be understood about isotope fractionation of recycled nitrogen through biological processes, which has made interpretation of novel nitrogen isotope data difficult. A researcher from the University of Connecticut plans to determine the influence of biological consumption and production on the isotope fractionation in ammonium. By helping to understand the processes surrounding fractionation of recycled ammonium at the organism level, this research will create a basis for which future researchers can better interpret isotope composition data to infer nitrogen cycle dynamics. A graduate student, a postdoctoral fellow, and two or more undergraduate students will be involved in the research. The researcher plans to integrate science with community-engaged learning by developing an undergraduate field and laboratory course that will require the students to present their research to stakeholders in the community. There will be a manual created for this course that will be disseminated in open-access forums for teachers hoping to develop similar courses.</p> <p>Biological nitrogen isotope fractionation associated with nitrogen recycling remains poorly constrained despite the advent of a variety of new techniques to analyze nitrogen isotopes in recent years. The use of isotopic composition data can be incredibly useful to interpreting nitrogen cycle processes in the ocean that are difficult to measure directly, which makes it crucial to further understand the processes behind fractionation to catch up with the advancement of the datasets available to researchers. This research will characterize the isotope fractionation dynamics of ammonium during biological consumption and production. The researchers will investigate whether the characteristic low concentrations of ammonium in the surface ocean affect isotope fractionation when the ammonium is recycled and whether there is a trophic isotope effect associated with ammonium recycling by protozoan grazers. With this research, there will be a baseline from which researchers can interpret recycled nitrogen dynamics from ammonium isotope datasets. The methods of comparing nitrogen cycling studies will become significantly clearer with such a standard making interpretation uniform by removing significant uncertainties.</p> Biological Nitrogen Isotope Fractionation largerWorkCitation project eng; USA oceans 2019-02-20 2019-03-21 0 BCO-DMO catalogue of parameters from Volume-dependent offsets in NO3- N and O isotope ratios of reference materials (Biological Nitrogen Isotope Fractionation 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/865552.rdf Name: Strain Units: unitless Description: <p>The two denitrifying bacteria strains used in the laboratory experiment: Pseudomonas chlororaphis f. sp. Aureofaciens (P. aureofaciens) and Pseudomonas. chlororaphis ( P. chlororaphis)</p> http://lod.bco-dmo.org/id/dataset-parameter/865553.rdf Name: Solution Units: unitless Description: <p>Internationally recognized nitrate reference materials IAEA-NO3 (International Atomic Energy Agency, Vienna, Austria) and USGS-34 (National Institute of Standards and Technology, Gaithersburg, MD, USA)</p> http://lod.bco-dmo.org/id/dataset-parameter/865554.rdf Name: Aliquot Units: unitless Description: <p>Types of aliquot: freshwater or seawater. Reference solutions were prepared from salts into primary stocks at 200 µM in deionized water (DIW). Then working aliquots were diluted from primary stocks with DIW or nitrate-deplete seawater</p> http://lod.bco-dmo.org/id/dataset-parameter/865555.rdf Name: Date Units: unitless Description: <p>Date of the experiments; yyyy-mm-dd</p> http://lod.bco-dmo.org/id/dataset-parameter/865556.rdf Name: Trial Units: unitless Description: <p>Trial name</p> http://lod.bco-dmo.org/id/dataset-parameter/865557.rdf Name: Concentration Units: umol L^-1 Description: <p>Concentrations of nitrate reference solutions</p> http://lod.bco-dmo.org/id/dataset-parameter/865558.rdf Name: Sample_volume Units: mL Description: <p>Sample volume injected to aliquot 10 nmol of nitrate</p> http://lod.bco-dmo.org/id/dataset-parameter/865559.rdf Name: N2O_peak_area Units: Vs Description: <p>Recoverd N2O peak area measured with a Thermo Delta V GC-IRMS with modified Gas Bench II and a PAL autosampler</p> http://lod.bco-dmo.org/id/dataset-parameter/865560.rdf Name: stdev_of_N2O_peak_area Units: unitless Description: <p>Standard deviation of N2O peak area replicates in each trial</p> http://lod.bco-dmo.org/id/dataset-parameter/865561.rdf Name: delta_15N Units: ‰ vs. N2Otank Description: <p>N isotopic composition of nitrate measured with the denitrifier method using a Thermo Delta V GC-IRMS with modified Gas Bench II and a PAL autosampler</p> http://lod.bco-dmo.org/id/dataset-parameter/865562.rdf Name: stdev_of_delta_15N Units: unitless Description: <p>Standard deviation of delta 15N replicates in each trial</p> http://lod.bco-dmo.org/id/dataset-parameter/865563.rdf Name: delta_18O Units: ‰ vs. N2Otank Description: <p>O isotopic composition of nitrate measured with the denitrifier method using a Thermo Delta V GC-IRMS with modified Gas Bench II and a PAL autosampler</p> http://lod.bco-dmo.org/id/dataset-parameter/865564.rdf Name: stdev_of_delta_18O Units: unitless Description: <p>Standard deviation of _18O replicates in each trial</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 4739 https://darchive.mblwhoilibrary.org/bitstream/1912/27932/1/dataset-865031_incidence-volume-effect__v1.tsv download https://doi.org/10.26008/1912/bco-dmo.865031.1 download onLine dataset &lt;p&gt;&lt;strong&gt;Sampling and analytical procedures:&lt;/strong&gt;&lt;/p&gt; &lt;p&gt;&lt;u&gt;
1. Analysis of NO&lt;sub&gt;3&lt;/sub&gt;&lt;sup&gt;-&lt;/sup&gt; N and O isotope ratios with the denitrifier method&lt;/u&gt;&lt;/p&gt; &lt;p&gt;The denitrifying bacteria strains &lt;em&gt;Pseudomonas chlororaphis &lt;/em&gt;f. sp. &lt;em&gt;aureofaciens&lt;/em&gt; (ATCC 13985, Manassas, VA, USA) and &lt;em&gt;Pseudomonas. chlororaphis&lt;/em&gt; (ATCC 43928, Manassas, VA, USA) were used. Cultures were inoculated from cryo-preserved aliquots (Weigand et al., 2011) into sterile growth media prepared as originally described (Sigman et al., 2001; Casciotti et al., 2002) in 700 mL glass bottles containing 600 mL of medium, then sealed with gas-tight lids. Cells were cultured for 7-10 days at 20˚C on a rotary shaker table. Cultures were harvested by centrifugation and resuspended into 220 mL of fresh medium without potassium nitrate addition, achieving &lt;em&gt;ca.&lt;/em&gt; 3-fold concentration of the bacteria. Two mL of the cell concentrates were added to respective 20-mL headspace glass vials, capped with pre-rinsed butyl rubber septa and crimp-seals (Mcllvin and Casciotti, 2011). Vials were sparged with a water-scrubbed N&lt;sub&gt;2&lt;/sub&gt; gas stream for 6 hours to remove any N&lt;sub&gt;2&lt;/sub&gt;O produced from the residual NO&lt;sub&gt;3&lt;/sub&gt;&lt;sup&gt;-&lt;/sup&gt; in the medium. NO&lt;sub&gt;3&lt;/sub&gt;&lt;sup&gt;- &lt;/sup&gt;samples were then injected into each vial to achieve a final sample size of 10 nmoles of N. Vials were incubated inverted in order to prevent potential N&lt;sub&gt;2&lt;/sub&gt;O leakage. Following overnight incubation in the dark, &lt;em&gt;ca.&lt;/em&gt; 0.1 ml of 10 mol L&lt;sup&gt;-1&lt;/sup&gt; NaOH was injected into each vial to kill the cultures and sequester CO&lt;sub&gt;2&lt;/sub&gt; into carbonate species. The N&lt;sub&gt;2&lt;/sub&gt;O gas in the vials was extracted, purified and analyzed with a Delta V Advantage continuous flow gas chromatograph isotope ratio mass spectrometer (Thermo Fisher Scientific, Waltham, MA, USA) interfaced with a modified Thermo Fisher Scientific Gas Bench sample preparation device fronted by dual cold traps (Casciotti et al., 2002) and a GC Pal autosampler (CTC Analytics, Zwingen, Switzerland). Samples were referenced to pure N&lt;sub&gt;2&lt;/sub&gt;O injections from a common reference gas cylinder.&lt;/p&gt; &lt;p&gt;&lt;u&gt;2. Demonstration of volume effects in analyzes of NO&lt;sub&gt;3&lt;/sub&gt;&lt;sup&gt;-&lt;/sup&gt; reference materials&lt;/u&gt;&lt;/p&gt; &lt;p&gt;The reference solutions were prepared from salts into primary stocks at 200 µmol L&lt;sup&gt;-1&lt;/sup&gt; in deionized water (DIW) from a Milli‐Q&lt;sup&gt;TM&lt;/sup&gt; water purification system (EMD Millipore, Burlington, MA, USA), and stored frozen. Primary stocks of NO&lt;sub&gt;3&lt;/sub&gt;&lt;sup&gt;-&lt;/sup&gt; reference materials (IAEA-NO3 and USGS-34) were diluted in NO&lt;sub&gt;3&lt;/sub&gt;&lt;sup&gt;-&lt;/sup&gt;-deplete surface Sargasso seawater or in aged DIW to concentrations of 1, 5 and 20 µmol L&lt;sup&gt;-1&lt;/sup&gt;, corresponding to respective injection volumes of 10, 2 and 0.5 mL, in order to aliquot 10 nmoles of N analyte. The NO&lt;sub&gt;3&lt;/sub&gt;&lt;sup&gt;- &lt;/sup&gt;aliquots were injected into the sparged bacterial concentrates of either &lt;em&gt;P. chlororaphis&lt;/em&gt; or &lt;em&gt;P. aureofaciens&lt;/em&gt;. Following bacterial conversion, the resulting N&lt;sub&gt;2&lt;/sub&gt;O in the reaction vials was extracted, purified and analyzed on the isotope ratio mass spectrometer.&lt;/p&gt; Specified by the Principal Investigator(s) &lt;p&gt;&lt;strong&gt;Processing notes from submitter:&lt;/strong&gt;&lt;/p&gt; &lt;ul&gt; &lt;li&gt;Data were processed using Microsoft Excel&amp;nbsp;&lt;/li&gt; &lt;/ul&gt; &lt;p&gt;&lt;strong&gt;BCO-DMO processing notes&lt;/strong&gt;&lt;/p&gt; &lt;ul&gt; &lt;li&gt;Date formats were changed from mm/dd/yy to yyyy-mm-dd&lt;/li&gt; &lt;li&gt;Spaces and units removed from column headers&lt;/li&gt; &lt;/ul&gt; 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 Delta V Advantage continuous flow gas chromatograph isotope ratio mass spectrometer (Thermo Fisher Scientific, Waltham, MA, USA) Delta V Advantage continuous flow gas chromatograph isotope ratio mass spectrometer (Thermo Fisher Scientific, Waltham, MA, USA) PI Supplied Instrument Name: Delta V Advantage continuous flow gas chromatograph isotope ratio mass spectrometer (Thermo Fisher Scientific, Waltham, MA, USA) PI Supplied Instrument Description:Delta V Advantage continuous flow gas chromatograph isotope ratio mass spectrometer (Thermo Fisher Scientific, Waltham, MA, USA) interfaced with a modified Thermo Fisher Scientific Gas Bench sample preparation device fronted by dual cold traps (Casciotti et al., 2002) and a GC Pal autosampler (CTC Analytics, Zwingen, Switzerland) - to measure N and O isotope ratio of nitrate using the denitrified method. Instrument Name: Gas Chromatograph Mass Spectrometer Instrument Short Name: Instrument Description: Instruments 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 by a mass spectrometer.