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Title Sum-
Institution Dataset ID
   set  data   graph     files  public Domoic acid assimilation in copepods from experiments conducted using water samples collected
in northern Gulf of Mexico in 2019
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The Dataset's Variables and Attributes

Row Type Variable Name Attribute Name Data Type Value
attribute NC_GLOBAL access_formats String .htmlTable,.csv,.json,.mat,.nc,.tsv,.esriCsv,.geoJson,.odvTxt
attribute NC_GLOBAL acquisition_description String 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 \u00b5m nitex mesh, and gently poured into 10-20 L carboys
and kept in the dark until returning to the laboratory for same-day


dDA \u2013 dissolved Domoic Acid
pDAa \u2013 particulate Domoic Acid (algal fraction)
pDAOP \u2013 particulate Domoic Acid (bound to organic polymers)
cDA \u2013 Domoic Acid in copepods
POC \u2013 Particulate Organic Carbon

Organic polymer formation and sorption of DA

Seawater organic polymers were formed in controlled laboratory conditions to
verify whether they could scavenge dDA (see dataset [https://www.bco-
Surface seawater was collected from Dauphin Island (AL, USA) and filtered
through a new 0.2 \u00b5m polycap filter (Pall Brand, USA). The freshly
filtered seawater was partitioned into 1-L polycarbonate bottles and the
initial measurements of dDA, pDA, cDA, pDAOP, and POC were made. POC was used
as a proxy for organic polymer formation. The same filtration techniques were
used for dDA and pDA as described above. Laboratory-reared adult Acartia tonsa
were collected on a 200 \u00b5m screen and gently rinsed with freshly filtered
artificial seawater, then transferred into 2 mL cryovials and stored in
-20\u00b0C until analyzed for cDA. Twenty-five mm glass fiber filters were
pre-combusted at 500\u00b0C for four hours and used to collect organic
polymers. The organic polymer collection method was modified from Passow et
al. (1995); loss of organic polymers via filtration was minimized by
maintaining low-vacuum (<200 mbar) and filtering samples for a maximum of 15
minutes. Lastly, the treatment bottles were spiked with a DA standard to bring
the final concentration to 10 \u00b5g DA L-1 and, for specific treatment
bottles, 30 copepods were added to each bottle. Bottles were then placed on
orbital shaker tables and gently shaken for 24 hours. Controls were not
shaken. Samples for dDA, pDA, cDA, pDAOP, and POC were collected after the
24-hour time period.

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\u00b0C until further
analysis. For pDAa 100 mL of seawater were filtered through a 5 \u00b5m
polycarbonate filter and stored in a 50 mL polypropylene tube at -20\u00b0C.
Similarly, for pDAOP 150 mL of seawater was filtered through a pre-combusted
25 mm glass-fiber filter and stored at -20\u00b0C. 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) \u2013 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 40\u00baC. 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 500\u00baC; 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\u2192266, 193, 220. The transition m/z 312\u2192266
was used for quantitation.

For field-simulation experiment results and methodology see dataset
attribute NC_GLOBAL awards_0_award_nid String 712666
attribute NC_GLOBAL awards_0_award_number String OCE-1558957
attribute NC_GLOBAL awards_0_data_url String http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1558957 (external link)
attribute NC_GLOBAL awards_0_funder_name String NSF Division of Ocean Sciences
attribute NC_GLOBAL awards_0_funding_acronym String NSF OCE
attribute NC_GLOBAL awards_0_funding_source_nid String 355
attribute NC_GLOBAL awards_0_program_manager String Dr Simone Metz
attribute NC_GLOBAL awards_0_program_manager_nid String 51479
attribute NC_GLOBAL awards_1_award_nid String 808394
attribute NC_GLOBAL awards_1_award_number String 5U19FD005923-04
attribute NC_GLOBAL awards_1_data_url String https://federalreporter.nih.gov/Projects/Details/?projectId=1156385 (external link)
attribute NC_GLOBAL awards_1_funder_name String U.S. Food and Drug Administration
attribute NC_GLOBAL awards_1_funding_acronym String FDA
attribute NC_GLOBAL awards_1_funding_source_nid String 808392
attribute NC_GLOBAL awards_1_program_manager String William Burkhardt
attribute NC_GLOBAL awards_1_program_manager_nid String 808393
attribute NC_GLOBAL cdm_data_type String Other
attribute NC_GLOBAL comment String Lab DA copepods
PI: Jeffrey W Krause
Data Version 1: 2020-06-24
attribute NC_GLOBAL Conventions String COARDS, CF-1.6, ACDD-1.3
attribute NC_GLOBAL creator_email String info at bco-dmo.org
attribute NC_GLOBAL creator_name String BCO-DMO
attribute NC_GLOBAL creator_type String institution
attribute NC_GLOBAL creator_url String https://www.bco-dmo.org/ (external link)
attribute NC_GLOBAL data_source String extract_data_as_tsv version 2.3 19 Dec 2019
attribute NC_GLOBAL dataset_current_state String Final and no updates
attribute NC_GLOBAL date_created String 2020-04-07T15:26:09Z
attribute NC_GLOBAL date_modified String 2020-07-14T18:51:14Z
attribute NC_GLOBAL defaultDataQuery String &amp;time&lt;now
attribute NC_GLOBAL doi String 10.26008/1912/bco-dmo.808402.1
attribute NC_GLOBAL Easternmost_Easting double -87.554261
attribute NC_GLOBAL geospatial_lat_max double 30.278166
attribute NC_GLOBAL geospatial_lat_min double 30.278166
attribute NC_GLOBAL geospatial_lat_units String degrees_north
attribute NC_GLOBAL geospatial_lon_max double -87.554261
attribute NC_GLOBAL geospatial_lon_min double -87.554261
attribute NC_GLOBAL geospatial_lon_units String degrees_east
attribute NC_GLOBAL infoUrl String https://www.bco-dmo.org/dataset/808402 (external link)
attribute NC_GLOBAL institution String BCO-DMO
attribute NC_GLOBAL instruments_0_acronym String Mass Spec
attribute NC_GLOBAL instruments_0_dataset_instrument_description String 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).
attribute NC_GLOBAL instruments_0_dataset_instrument_nid String 808411
attribute NC_GLOBAL instruments_0_description String 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.
attribute NC_GLOBAL instruments_0_instrument_external_identifier String https://vocab.nerc.ac.uk/collection/L05/current/LAB16/ (external link)
attribute NC_GLOBAL instruments_0_instrument_name String Mass Spectrometer
attribute NC_GLOBAL instruments_0_instrument_nid String 685
attribute NC_GLOBAL instruments_0_supplied_name String Acquity UPLC system coupled to a 5500 QTRAP
attribute NC_GLOBAL instruments_1_acronym String Homogenizer
attribute NC_GLOBAL instruments_1_dataset_instrument_nid String 808410
attribute NC_GLOBAL instruments_1_description String 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.
attribute NC_GLOBAL instruments_1_instrument_name String Homogenizer
attribute NC_GLOBAL instruments_1_instrument_nid String 522984
attribute NC_GLOBAL instruments_1_supplied_name String Sonics Materials Ultrasonic Processor (model - VCX 130)
attribute NC_GLOBAL instruments_2_acronym String Costech ECS 4010
attribute NC_GLOBAL instruments_2_dataset_instrument_nid String 808412
attribute NC_GLOBAL instruments_2_description String 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.
attribute NC_GLOBAL instruments_2_instrument_name String Costech International Elemental Combustion System (ECS) 4010
attribute NC_GLOBAL instruments_2_instrument_nid String 793023
attribute NC_GLOBAL keywords String bco, bco-dmo, biological, bottle, cDA_indiv, cDA_mass, chemical, copepods, data, dataset, date, dmo, erddap, experiment, indiv, iso, latitude, longitude, management, mass, num, Num_copepods, oceanography, office, preliminary, replicate, Replicate_bottle, time, time2, treatment
attribute NC_GLOBAL license String https://www.bco-dmo.org/dataset/808402/license (external link)
attribute NC_GLOBAL metadata_source String https://www.bco-dmo.org/api/dataset/808402 (external link)
attribute NC_GLOBAL Northernmost_Northing double 30.278166
attribute NC_GLOBAL param_mapping String {'808402': {'Latitude_N': 'master - latitude', 'Longitude_W': 'master - longitude', 'ISO_DateTime_UTC': 'master - time'}}
attribute NC_GLOBAL parameter_source String https://www.bco-dmo.org/mapserver/dataset/808402/parameters (external link)
attribute NC_GLOBAL people_0_affiliation String Dauphin Island Sea Lab
attribute NC_GLOBAL people_0_affiliation_acronym String DISL
attribute NC_GLOBAL people_0_person_name String Jeffrey W Krause
attribute NC_GLOBAL people_0_person_nid String 544582
attribute NC_GLOBAL people_0_role String Principal Investigator
attribute NC_GLOBAL people_0_role_type String originator
attribute NC_GLOBAL people_1_affiliation String Louisiana State University
attribute NC_GLOBAL people_1_affiliation_acronym String LSU
attribute NC_GLOBAL people_1_person_name String Kanchan Maiti
attribute NC_GLOBAL people_1_person_nid String 712671
attribute NC_GLOBAL people_1_role String Co-Principal Investigator
attribute NC_GLOBAL people_1_role_type String originator
attribute NC_GLOBAL people_2_affiliation String Dauphin Island Sea Lab
attribute NC_GLOBAL people_2_affiliation_acronym String DISL
attribute NC_GLOBAL people_2_person_name String Israel A. Marquez Jr.
attribute NC_GLOBAL people_2_person_nid String 808389
attribute NC_GLOBAL people_2_role String Contact
attribute NC_GLOBAL people_2_role_type String related
attribute NC_GLOBAL people_3_affiliation String Woods Hole Oceanographic Institution
attribute NC_GLOBAL people_3_affiliation_acronym String WHOI BCO-DMO
attribute NC_GLOBAL people_3_person_name String Amber D. York
attribute NC_GLOBAL people_3_person_nid String 643627
attribute NC_GLOBAL people_3_role String BCO-DMO Data Manager
attribute NC_GLOBAL people_3_role_type String related
attribute NC_GLOBAL project String CLASiC
attribute NC_GLOBAL projects_0_acronym String CLASiC
attribute NC_GLOBAL projects_0_description String NSF Award Abstract:
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.
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.
attribute NC_GLOBAL projects_0_end_date String 2019-03
attribute NC_GLOBAL projects_0_geolocation String Northern Gulf of Mexico, specifically the Louisiana Shelf region dominated by the discharge of the Mississippi River on the western side of the delta
attribute NC_GLOBAL projects_0_name String The biotic and abiotic controls on the Silicon cycle in the northern Gulf of Mexico
attribute NC_GLOBAL projects_0_project_nid String 712667
attribute NC_GLOBAL projects_0_start_date String 2016-04
attribute NC_GLOBAL publisher_name String Biological and Chemical Oceanographic Data Management Office (BCO-DMO)
attribute NC_GLOBAL publisher_type String institution
attribute NC_GLOBAL sourceUrl String (local files)
attribute NC_GLOBAL Southernmost_Northing double 30.278166
attribute NC_GLOBAL standard_name_vocabulary String CF Standard Name Table v55
attribute NC_GLOBAL subsetVariables String time,latitude,longitude,Date,time2,Experiment
attribute NC_GLOBAL summary String Domoic acid assimilation in copepods by consuming organic polymers containing domoic acid. Results from lab experiments designed to investigate the role of organic polymers in trophic transfer of domoic acid, using Acartia tonsa as a model organism. Water samples were collected in the northern Gulf of Mexico in 2019.
attribute NC_GLOBAL time_coverage_end String 2019-02-07T15:15Z
attribute NC_GLOBAL time_coverage_start String 2019-02-07T15:15Z
attribute NC_GLOBAL title String Domoic acid assimilation in copepods from experiments conducted using water samples collected in northern Gulf of Mexico in 2019
attribute NC_GLOBAL version String 1
attribute NC_GLOBAL Westernmost_Easting double -87.554261
attribute NC_GLOBAL xml_source String osprey2erddap.update_xml() v1.5
variable time   double  
attribute time _CoordinateAxisType String Time
attribute time actual_range double 1.5495525E9, 1.5495525E9
attribute time axis String T
attribute time bcodmo_name String ISO_DateTime_UTC
attribute time description String Date/Time (UTC) in ISO 8601 format yyyy-mm-ddTHH:MMZ
attribute time ioos_category String Time
attribute time long_name String ISO Date Time UTC
attribute time nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/DTUT8601/ (external link)
attribute time source_name String ISO_DateTime_UTC
attribute time standard_name String time
attribute time time_origin String 01-JAN-1970 00:00:00
attribute time time_precision String 1970-01-01T00:00Z
attribute time units String seconds since 1970-01-01T00:00:00Z
variable latitude   double  
attribute latitude _CoordinateAxisType String Lat
attribute latitude _FillValue double NaN
attribute latitude actual_range double 30.278166, 30.278166
attribute latitude axis String Y
attribute latitude bcodmo_name String latitude
attribute latitude colorBarMaximum double 90.0
attribute latitude colorBarMinimum double -90.0
attribute latitude description String Latitude in decimal degrees
attribute latitude ioos_category String Location
attribute latitude long_name String Latitude
attribute latitude nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/LATX/ (external link)
attribute latitude source_name String Latitude_N
attribute latitude standard_name String latitude
attribute latitude units String degrees_north
variable longitude   double  
attribute longitude _CoordinateAxisType String Lon
attribute longitude _FillValue double NaN
attribute longitude actual_range double -87.554261, -87.554261
attribute longitude axis String X
attribute longitude bcodmo_name String longitude
attribute longitude colorBarMaximum double 180.0
attribute longitude colorBarMinimum double -180.0
attribute longitude description String Longitude in decimal degrees
attribute longitude ioos_category String Location
attribute longitude long_name String Longitude
attribute longitude nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/LONX/ (external link)
attribute longitude source_name String Longitude_W
attribute longitude standard_name String longitude
attribute longitude units String degrees_east
variable Date   int  
attribute Date _FillValue int 2147483647
attribute Date actual_range int 20190207, 20190207
attribute Date bcodmo_name String date_local
attribute Date description String Local date water was collected in format yyyymmdd
attribute Date long_name String Date
attribute Date units String unitless
variable time2   String  
attribute time2 bcodmo_name String time_local
attribute time2 description String Local time water was collected in format hhmm (24 hr)
attribute time2 long_name String Time
attribute time2 units String unitless
variable Experiment   String  
attribute Experiment bcodmo_name String exp_id
attribute Experiment description String Experiment name
attribute Experiment long_name String Experiment
attribute Experiment units String unitless
variable Treatment   String  
attribute Treatment bcodmo_name String treatment
attribute Treatment description String Treatment name
attribute Treatment long_name String Treatment
attribute Treatment units String unitless
variable Replicate_bottle   String  
attribute Replicate_bottle bcodmo_name String replicate
attribute Replicate_bottle description String Letters denote a unique bottle that was sampled for each measurement
attribute Replicate_bottle long_name String Replicate Bottle
attribute Replicate_bottle units String unitless
variable Num_copepods   byte  
attribute Num_copepods _FillValue byte 127
attribute Num_copepods actual_range byte 24, 49
attribute Num_copepods bcodmo_name String count
attribute Num_copepods description String Number of copepods per bottle
attribute Num_copepods long_name String Num Copepods
attribute Num_copepods units String integer
variable cDA_mass   float  
attribute cDA_mass _FillValue float NaN
attribute cDA_mass actual_range float 0.0, 0.82
attribute cDA_mass bcodmo_name String domoic acid
attribute cDA_mass description String Total Domoic Acid in copepods
attribute cDA_mass long_name String C DA Mass
attribute cDA_mass units String nanograms (ng)
variable cDA_indiv   float  
attribute cDA_indiv _FillValue float NaN
attribute cDA_indiv actual_range float 0.0, 30.76
attribute cDA_indiv bcodmo_name String domoic acid
attribute cDA_indiv description String Domoic Acid normalized per individual
attribute cDA_indiv long_name String C DA Indiv
attribute cDA_indiv units String picograms (pg) per copepod

The information in the table above is also available in other file formats (.csv, .htmlTable, .itx, .json, .jsonlCSV1, .jsonlCSV, .jsonlKVP, .mat, .nc, .nccsv, .tsv, .xhtml) via a RESTful web service.

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