http://lod.bco-dmo.org/id/dataset/808413 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 2020-04-07 ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data ISO 19115-2:2009(E) Domoic acid assimilation in copepods by consuming organic polymers and Pseudo-nitzschia from experiments conducted using water samples collected in northern Gulf of Mexico in 2017 and 2018. 2020-06-24 publication 2020-06-24 revision Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA) 2020-07-14 publication https://doi.org/10.26008/1912/bco-dmo.808413.1 Jeffrey W. Krause Dauphin Island Sea Lab principalInvestigator Kanchan Maiti Louisiana State University 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: Marquez Jr., I., Maiti, K., Krause, J. (2020) Domoic acid assimilation in copepods by consuming organic polymers and Pseudo-nitzschia from experiments conducted using water samples collected in northern Gulf of Mexico in 2017 and 2018. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2020-06-24 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.808413.1 [access date] Dataset Description: Domoic acid assimilation in copepods by consuming organic polymers and Pseudo-nitzschia. Results from experiments designed to investigate the contribution of organic polymers and Pseudo-nitzschia to domoic acid trophic transfer. Water samples were collected in the northern Gulf of Mexico in 2017 and 2018. Related datasets: Organic polymers and domoic acid https://www.bco-dmo.org/dataset/808280 Domoic acid assimilation in copepods https://www.bco-dmo.org/dataset/808402 Methods and Sampling: Location Water collection sites in the northern Gulf of Mexico, particularly at the mouth of Mobile Bay and Little Lagoon, AL. Water Collection Briefly, water was collected from the field using a 5-gallon bucket, pre-screened with a 200 µm nitex mesh, and gently poured into 10-20 L carboys and kept in the dark until returning to the laboratory for same-day processing. Terminology dDA – dissolved Domoic Acid pDAa – particulate Domoic Acid (algal fraction) pDAOP – particulate Domoic Acid (bound to organic polymers) cDA – Domoic Acid in copepods POC – Particulate Organic Carbon Field-simulation experiments Field water used for grazing experiments was collected during spring and summer (2017, 2018) from designated monitoring sites at Little Lagoon (Gulf Shores, Alabama, USA). The water was prefiltered with a 200 µm mesh, gently poured into carboys, and kept in the dark until the start of the laboratory experiment. Laboratory-reared adult Acartia tonsa, with no prior exposure to DA, were provided by the University of Southern Mississippi Gulf Coast Research Laboratory’s Thad Cochran Marine Aquaculture Center and starved for 24 hours prior to experiment initiation. Initial samples for Pseudo-nitzschia abundance and DA were collected. For cell abundance, 50 mL of seawater was preserved with 2 mL of Bouin’s solution and stored at 4°C. A Sedgewick rafter slide was used to count cells in a 1 mL subsample. DA was measured in two forms, dDA and pDA. Seawater was filtered using a 25 mm glass fiber filter and 30 mL of filtrate was collected in a polypropylene conical tube and stored at -20°C for later analysis of dDA. pDA was sampled by filtering 100 mL of seawater under low vacuum through a 25 mm glass fiber filter and stored in a cryovial at -20°C. The experimental design consisted of four treatments, each containing triplicate 1-L polycarbonate bottles. Two treatments contained seawater filtered through a 0.2 µm polycap filter (as described above); these treatments tested whether copepods could assimilate dDA through the proposed organic polymer-bound pathway. The remaining treatments contained seawater with a natural phytoplankton community that was concentrated by a factor of three, using a 20 µm mesh. After the bottles were filled with the appropriate water, 30 copepods were added to the necessary treatments and the experiments started. After 24 hours the copepods were collected on a 200 µm screen, gently rinsed with filtered seawater, placed in fresh filtered artificial seawater, and allowed to evacuate their guts for ~1 hour. Afterwards, copepods were once again screened and rinsed three times, and then stored in a cryovial at -20°C until analysis. Liquid chromatography-mass spectrometry method for domoic acid quantification LC-MS sample preparation followed was modified from Wang et al. (2012) for the determination of dDA, pDA, pDAOP and cDA. The samples for DA determination were cleaned and concentrated using Bond Elut LRC - C18, 200 mg, solid-phase extraction (SPE) columns from Agilent Technologies. For dDA, 30 mL seawater samples were filtered using a 47 mm glass fiber filter; the filtrate was collected and acidified with formic acid to yield a 0.2% final solution. SPE columns were conditioned with one column volume of HPLC-grade methanol followed by one column volume of HPLC-grade water. Samples were then loaded on the SPE column and filtered at ~1 mL min-1 using a vacuum manifold, followed by 10 mL of 0.2% formic acid as a rinse for the sample tube and SPE column. The SPE column was then allowed to go dry and was eluted with 1.5 mL of 20 mM ammonium acetate in 50% methanol (pH 8) and collected in a glass tube. The tubes were centrifuged for 5 minutes at ~1300 x g, supernatant was transferred into an LC vial with a Pasteur pipette, and stored at 4°C until further analysis. For pDAa 100 mL of seawater were filtered through a 5 µm polycarbonate filter and stored in a 50 mL polypropylene tube at -20°C. Similarly, for pDAOP 150 mL of seawater was filtered through a pre-combusted 25 mm glass-fiber filter and stored at -20°C. Prior to concentration and clean-up for pDA, pDAOP, and cDA, the filters were submerged in 2 mL of 80% methanol and sonicated to ensure cells and copepods were lysed. Sonication pulses were done for a total of 45 seconds (5 seconds on/off) on a Sonics Materials Ultrasonic Processor (model - VCX 130) at 75% power. Subsequent clean-up using the SPE column is the same as for the dDA samples. An ultra-performance liquid chromatography (UPLC) – tandem mass spectrometry (MS) system was used for the quantification of DA.The LC-MS system consisted of Acquity UPLC system (Waters, Milford, MA) coupled to a 5500 QTRAP triple quadrupole / linear ion trap mass spectrometer equipped with a TurboIonSpray interface (Sciex, Foster City, CA, USA). The analytes were separated on a Luna C18 (2), 2.0 x 100 mm column (Phenomenex, Torrance, CA, USA) with column temperature held at 40ºC. The mobile phase was water (A) and 95% aqueous acetonitrile (B) with 0.1% formic acid additive and the flow rate was 0.4 ml/min. Gradient program was: 5% B for 3 min, linear gradient to 60% B at 10 min, 95% B at 10.1 min, hold at 95% B for 2 min. MS was operated in positive ion mode. Ion spray voltage was 5 kV and declustering potential was 80 V. Gas parameter settings were: nebulizer gas, 50 psi; turbo gas, 50 psi at 500ºC; curtain gas, 20 psi; and collision gas, medium setting. The collision energy applied was 25eV. The transitions used for selected reaction monitoring were m/z 312→266, 193, 220. The transition m/z 312→266 was used for quantitation. For organic polymer formation and sorption of DA results and methodology see https://www.bco-dmo.org/dataset/808280. Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1558957 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1558957 Funding provided by U.S. Food and Drug Administration (FDA) Award Number: 5U19FD005923-04 Award URL: https://federalreporter.nih.gov/Projects/Details/?projectId=1156385 completed Jeffrey W. Krause Dauphin Island Sea Lab 251-861-2141 x2289 101 Bienville Blvd Dauphin Island AL 36528 USA jkrause@disl.edu pointOfContact Kanchan Maiti Louisiana State University 225-578-4531 1143 Energy Coast Env Bldg Baton Rouge LA 70803 USA kmaiti@lsu.edu pointOfContact asNeeded Dataset Version: 1 Unknown ISO_DateTime_UTC Latitude_N Longitude_W Date Time Experiment Treatment Replicate_bottle dDA_conc pDAa_conc Cell_tox Pnitz_density DA_cop_indiv Sonics Materials Ultrasonic Processor (model - VCX 130) Acquity UPLC system coupled to a 5500 QTRAP theme None, User defined ISO_DateTime_UTC latitude longitude date_local time_local experiment id treatment replicate domoic acid cell_concentration featureType BCO-DMO Standard Parameters Costech International Elemental Combustion System (ECS) 4010 Homogenizer 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. The biotic and abiotic controls on the Silicon cycle in the northern Gulf of Mexico https://osprey.bco-dmo.org/project/712667 The biotic and abiotic controls on the Silicon cycle in the northern Gulf of Mexico <p><em>NSF Award Abstract:</em><br /> The Louisiana Shelf system in the northern Gulf of Mexico is fed by the Mississippi River and its many tributaries which contribute large quantities of nutrients from agricultural fertilizer to the region. Input of these nutrients, especially nitrogen, has led to eutrophication. Eutrophication is the process wherein a body of water such as the Louisiana Shelf becomes enriched in dissolved nutrients that increase phytoplankton growth which eventually leads to decreased oxygen levels in bottom waters. This has certainly been observed in this area, and diatoms, a phytoplankton which represents the base of the food chain, have shown variable silicon/nitrogen (Si/N) ratios. Because diatoms create their shells from silicon, their growth is controlled not only by nitrogen inputs but the availability of silicon. Lower Si/N ratios are showing that silicon may be playing an increasingly important role in regulating diatom production in the system. For this reason, a scientist from the University of South Alabama will determine the biogeochemical processes controlling changes in Si/N ratios in the Louisiana Shelf system. One graduate student on their way to a doctorate degree and three undergraduate students will be supported and trained as part of this project. Also, four scholarships for low-income, high school students from Title 1 schools will get to participate in a month-long summer Marine Science course at the Dauphin Island Sea Laboratory and be included in the research project. The study has significant societal benefits given this is an area where $2.4 trillion gross domestic product revenue is tied up in coastal resources. Since diatoms are at the base of the food chain that is the biotic control on said coastal resources, the growth of diatoms in response to eutrophication is important to study.</p> <p>Eutrophication of the Mississippi River and its tributaries has the potential to alter the biological landscape of the Louisiana Shelf system in the northern Gulf of Mexico by influencing the Si/N ratios below those that are optimal for diatom growth. A scientist from the University of South Alabama believes the observed changes in the Si/N ratio may indicate silicon now plays an important role in regulating diatom production in the system. As such, understanding the biotic and abiotic processes controlling the silicon cycle is crucial because diatoms dominate at the base of the food chain in this highly productive region. The study will focus on following issues: (1) the importance of recycled silicon sources on diatom production; (2) can heavily-silicified diatoms adapt to changing Si/N ratios more effectively than lightly-silicified diatoms; and (3) the role of reverse weathering in sequestering silicon thereby reducing diffusive pore-water transport. To attain these goals, a new analytical approach, the PDMPO method (compound 2-(4-pyridyl)-5-((4-(2-dimethylaminoethylamino-carbamoyl)methoxy)phenyl)oxazole) that quantitatively measures taxa-specific silica production would be used.</p> CLASiC largerWorkCitation project eng; USA oceans -87.809526 -87.554261 30.234973 30.278166 2017-07-12 2018-05-15 Northern Gulf of Mexico, specifically the Louisiana Shelf region dominated by the discharge of the Mississippi River on the western side of the delta 0 BCO-DMO catalogue of parameters from Domoic acid assimilation in copepods by consuming organic polymers and Pseudo-nitzschia from experiments conducted using water samples collected in northern Gulf of Mexico in 2017 and 2018. 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/816696.rdf Name: ISO_DateTime_UTC Units: unitless Description: <p>Date/Time (UTC) in ISO 8601 format yyyy-mm-ddTHH:MMZ</p> http://lod.bco-dmo.org/id/dataset-parameter/816697.rdf Name: Latitude_N Units: decimal degrees Description: <p>Latitude in decimal degrees</p> http://lod.bco-dmo.org/id/dataset-parameter/816698.rdf Name: Longitude_W Units: decimal degrees Description: <p>Longitude in decimal degrees</p> http://lod.bco-dmo.org/id/dataset-parameter/816699.rdf Name: Date Units: unitless Description: <p>Local date water was collected in format yyyymmdd</p> http://lod.bco-dmo.org/id/dataset-parameter/816700.rdf Name: Time Units: unitless Description: <p>Local time water was collected in format hhmm (24 hr)</p> http://lod.bco-dmo.org/id/dataset-parameter/816701.rdf Name: Experiment Units: unitless Description: <p>Experiment name</p> http://lod.bco-dmo.org/id/dataset-parameter/816702.rdf Name: Treatment Units: unitless Description: <p>Treatment name</p> http://lod.bco-dmo.org/id/dataset-parameter/816703.rdf Name: Replicate_bottle Units: unitless Description: <p>Letters denote a unique bottle that was sampled for each measurement</p> http://lod.bco-dmo.org/id/dataset-parameter/816704.rdf Name: dDA_conc Units: micrograms (µg) per liter (L) Description: <p>dissolved Domoic Acid in seawater</p> http://lod.bco-dmo.org/id/dataset-parameter/816705.rdf Name: pDAa_conc Units: nanograms (ng) per liter (L) Description: <p>particulate Domoic Acid particles (&gt; 5 um) in seawater</p> http://lod.bco-dmo.org/id/dataset-parameter/816706.rdf Name: Cell_tox Units: picograms (pg) per cell Description: <p>Cell toxicity, domoic acid normalized per Pseudo-nitzschia cell</p> http://lod.bco-dmo.org/id/dataset-parameter/816707.rdf Name: Pnitz_density Units: cells per liter Description: <p>Pseudo-nitzschia cell concentration</p> http://lod.bco-dmo.org/id/dataset-parameter/816708.rdf Name: DA_cop_indiv Units: picograms (pg) per copepod Description: <p>Total Domoic Acid in copepods normalized per individual</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 7331 https://darchive.mblwhoilibrary.org/bitstream/1912/25966/1/dataset-808413_field-domoic-acid-and-copepods__v1.tsv download https://doi.org/10.26008/1912/bco-dmo.808413.1 download onLine dataset Location Water collection sites in the northern Gulf of Mexico, particularly at the mouth of Mobile Bay and Little Lagoon, AL. Water Collection Briefly, water was collected from the field using a 5-gallon bucket, pre-screened with a 200 µm nitex mesh, and gently poured into 10-20 L carboys and kept in the dark until returning to the laboratory for same-day processing. Terminology dDA – dissolved Domoic Acid pDAa – particulate Domoic Acid (algal fraction) pDAOP – particulate Domoic Acid (bound to organic polymers) cDA – Domoic Acid in copepods POC – Particulate Organic Carbon Field-simulation experiments Field water used for grazing experiments was collected during spring and summer (2017, 2018) from designated monitoring sites at Little Lagoon (Gulf Shores, Alabama, USA). The water was prefiltered with a 200 µm mesh, gently poured into carboys, and kept in the dark until the start of the laboratory experiment. Laboratory-reared adult Acartia tonsa, with no prior exposure to DA, were provided by the University of Southern Mississippi Gulf Coast Research Laboratory’s Thad Cochran Marine Aquaculture Center and starved for 24 hours prior to experiment initiation. Initial samples for Pseudo-nitzschia abundance and DA were collected. For cell abundance, 50 mL of seawater was preserved with 2 mL of Bouin’s solution and stored at 4°C. A Sedgewick rafter slide was used to count cells in a 1 mL subsample. DA was measured in two forms, dDA and pDA. Seawater was filtered using a 25 mm glass fiber filter and 30 mL of filtrate was collected in a polypropylene conical tube and stored at -20°C for later analysis of dDA. pDA was sampled by filtering 100 mL of seawater under low vacuum through a 25 mm glass fiber filter and stored in a cryovial at -20°C. The experimental design consisted of four treatments, each containing triplicate 1-L polycarbonate bottles. Two treatments contained seawater filtered through a 0.2 µm polycap filter (as described above); these treatments tested whether copepods could assimilate dDA through the proposed organic polymer-bound pathway. The remaining treatments contained seawater with a natural phytoplankton community that was concentrated by a factor of three, using a 20 µm mesh. After the bottles were filled with the appropriate water, 30 copepods were added to the necessary treatments and the experiments started. After 24 hours the copepods were collected on a 200 µm screen, gently rinsed with filtered seawater, placed in fresh filtered artificial seawater, and allowed to evacuate their guts for ~1 hour. Afterwards, copepods were once again screened and rinsed three times, and then stored in a cryovial at -20°C until analysis. Liquid chromatography-mass spectrometry method for domoic acid quantification LC-MS sample preparation followed was modified from Wang et al. (2012) for the determination of dDA, pDA, pDAOP and cDA. The samples for DA determination were cleaned and concentrated using Bond Elut LRC - C18, 200 mg, solid-phase extraction (SPE) columns from Agilent Technologies. For dDA, 30 mL seawater samples were filtered using a 47 mm glass fiber filter; the filtrate was collected and acidified with formic acid to yield a 0.2% final solution. SPE columns were conditioned with one column volume of HPLC-grade methanol followed by one column volume of HPLC-grade water. Samples were then loaded on the SPE column and filtered at ~1 mL min-1 using a vacuum manifold, followed by 10 mL of 0.2% formic acid as a rinse for the sample tube and SPE column. The SPE column was then allowed to go dry and was eluted with 1.5 mL of 20 mM ammonium acetate in 50% methanol (pH 8) and collected in a glass tube. The tubes were centrifuged for 5 minutes at ~1300 x g, supernatant was transferred into an LC vial with a Pasteur pipette, and stored at 4°C until further analysis. For pDAa 100 mL of seawater were filtered through a 5 µm polycarbonate filter and stored in a 50 mL polypropylene tube at -20°C. Similarly, for pDAOP 150 mL of seawater was filtered through a pre-combusted 25 mm glass-fiber filter and stored at -20°C. Prior to concentration and clean-up for pDA, pDAOP, and cDA, the filters were submerged in 2 mL of 80% methanol and sonicated to ensure cells and copepods were lysed. Sonication pulses were done for a total of 45 seconds (5 seconds on/off) on a Sonics Materials Ultrasonic Processor (model - VCX 130) at 75% power. Subsequent clean-up using the SPE column is the same as for the dDA samples. An ultra-performance liquid chromatography (UPLC) – tandem mass spectrometry (MS) system was used for the quantification of DA.The LC-MS system consisted of Acquity UPLC system (Waters, Milford, MA) coupled to a 5500 QTRAP triple quadrupole / linear ion trap mass spectrometer equipped with a TurboIonSpray interface (Sciex, Foster City, CA, USA). The analytes were separated on a Luna C18 (2), 2.0 x 100 mm column (Phenomenex, Torrance, CA, USA) with column temperature held at 40ºC. The mobile phase was water (A) and 95% aqueous acetonitrile (B) with 0.1% formic acid additive and the flow rate was 0.4 ml/min. Gradient program was: 5% B for 3 min, linear gradient to 60% B at 10 min, 95% B at 10.1 min, hold at 95% B for 2 min. MS was operated in positive ion mode. Ion spray voltage was 5 kV and declustering potential was 80 V. Gas parameter settings were: nebulizer gas, 50 psi; turbo gas, 50 psi at 500ºC; curtain gas, 20 psi; and collision gas, medium setting. The collision energy applied was 25eV. The transitions used for selected reaction monitoring were m/z 312→266, 193, 220. The transition m/z 312→266 was used for quantitation. For organic polymer formation and sorption of DA results and methodology see https://www.bco-dmo.org/dataset/808280. Specified by the Principal Investigator(s) &lt;p&gt;BCO-DMO Data Manager Processing Notes:&lt;br /&gt; * Data from sheet &quot;Field_DA-P.nitz&quot; from originally submitted Excel file &quot;DATASET_DA-org polymers-cop grazing_BCO-DMO_params_IAM.xlsx&quot; extracted to csv.&lt;br /&gt; * Column names modified to meet BCO-DMO naming conventions designed for interoperability (only letter, numbers, and underscores, no spaces).&lt;br /&gt; * Data loaded into the bco-dmo data system with -999 as a missing data identifier.&lt;br /&gt; * Year in ISO timestamp changed from 2071 to 2017 in rows 17-31 of originally submitted Excel sheet.&lt;/p&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 PI Supplied Instrument Name: Instrument Name: Costech International Elemental Combustion System (ECS) 4010 Instrument Short Name:Costech ECS 4010 Instrument Description: The ECS 4010 Nitrogen / Protein Analyzer is an elemental combustion analyser for CHNSO elemental analysis and Nitrogen / Protein determination. The GC oven and separation column have a temperature range of 30-110 degC, with control of +/- 0.1 degC. Sonics Materials Ultrasonic Processor (model - VCX 130) Sonics Materials Ultrasonic Processor (model - VCX 130) PI Supplied Instrument Name: Sonics Materials Ultrasonic Processor (model - VCX 130) Instrument Name: Homogenizer Instrument Short Name:Homogenizer Instrument Description: A homogenizer is a piece of laboratory equipment used for the homogenization of various types of material, such as tissue, plant, food, soil, and many others. Acquity UPLC system coupled to a 5500 QTRAP Acquity UPLC system coupled to a 5500 QTRAP PI Supplied Instrument Name: Acquity UPLC system coupled to a 5500 QTRAP PI Supplied Instrument Description:Acquity UPLC system (Waters, Milford, MA) coupled to a 5500 QTRAP triple quadrupole / linear ion trap mass spectrometer equipped with a TurboIonSpray interface (Sciex, Foster City, CA, USA). 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/