http://lod.bco-dmo.org/id/dataset/738772
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
2018-06-18
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Coccolithophore-associated organic biopolymers for fractionating particle-reactive radionuclides (234Th, 233Pa, 210Pb, 210Po, and 7Be)
2018-05-15
publication
2018-05-15
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2019-03-28
publication
https://doi.org/10.1575/1912/bco-dmo.738772.1
Peter Santschi
Texas A&M, Galveston
principalInvestigator
Antonietta Quigg
Texas A&M, Galveston
principalInvestigator
Kathleen Schwehr
Texas A&M, Galveston
principalInvestigator
Chen Xu
Texas A&M, Galveston
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: Santschi, P., Quigg, A., Schwehr, K., Xu, C. (2018) Coccolithophore-associated organic biopolymers for fractionating particle-reactive radionuclides (234Th, 233Pa, 210Pb, 210Po, and 7Be). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2018-05-15 [if applicable, indicate subset used]. doi:10.1575/1912/bco-dmo.738772.1 [access date]
Recoveries and partition coefficients of Po, Pb and Be Dataset Description: <p>Laboratory incubation experiments using the coccolithophore Emiliania huxleyi were conducted<br />
in the presence of 234Th, 233Pa, 210Pb, 210Po, and 7Be to differentiate radionuclide uptake to the CaCO3<br />
coccosphere from coccolithophore-associated biopolymers.</p> Methods and Sampling: <p>The seawater (&lt; 1 kDa) was enriched with f/2 nutrients, trace metals and vitamins, and autoclaved in pre-combusted and seawater-preconditioned clear glassware. Then, ~50 Bq of each gamma emitting radionuclide, including 234Th, 233Pa, 210Pb and 7Be, was added. Since 210Po emits no gamma radiation, 210Po was added separately into the seawater. After checking the pH of each radiolabeled medium to be 8.0, 2 mL of laboratory axenic Emiliania huxleyi (CCMP 371) was added to 100 mL of media and incubated at a temperature of 19±1ºC with a light:dark cycle of 14 h:10 h under an irradiation condition of 100 µmol-quanta/m2/s.</p>
<p>Non-attached exopolymeric substances (NAEPS) and exopolymeric substances attached on the coccolithophore cellular surface (AEPS) were extracted followed the procedures described in Chuang et al. (2015) and Xu et al. (2011). In brief, laboratory cultures were centrifuged at 3000 ×g for 30 min, and then the supernatant for the NAEPS fraction was filtered, followed by the concentration and extensive desalting of supernatant against nanopure water (18.2 Ω) with 3 kDa Microsep centrifugal filter tubes (Milipore). For AEPS extraction, the resultant pellet from the centrifugation was resuspended by 50 mL 3% NaCl solution and stirred gently overnight at 4ºC. Lastly, the solution was centrifuged, and the supernatant containing the AEPS was then filtered before further desalting via the 3 kDa ultrafiltration centrifugation tubes. The pellet from the previous step was thus further digested in the 0.44 M HAc + 0.1 M NaCl solution at 4ºC for 8 h. After the digestion, the mixed solution was centrifuged and filtered, followed by ultrafiltration of the supernatant with 3 kDa Microsep centrifugal filter tubes. The retentate (&gt; 3 kDa) was defined as coccosphere-associated biopolymers. The permeate (&lt;3 kDa), defined as the fraction of digested biogenic calcite. Cells remaining from the last step was further heated in 20 mL of 1% SDS containing 10 mM Tris solution (pH 6.8) at 95 ºC for 1 h. The supernatant was also collected through centrifugation and filtration, followed by desalting and concentration with 3 kDa Microsep centrifugal filter tubes. Subsequently, the pellet was further digested by 0.04 M NH2OH HCl + 4.35 M HAc mixture at 96 ºC for 6 h, with occasional agitation to obtain the intracellular Fe-Mn associated metabolitic biopolymer. The sum of these two fractions represents the intracellular biopolymers after cell breakage.</p>
<p>Subsamples were taken from the concentrated biopolymers for the analysis of protein, total carbohydrate (TCHO) and uronic acid (URA), respectively. In brief, the protein abundance was measured through a modified Lowry protein assay, using bovine serum albumin (BSA) as the standard. For the concentrations of TCHO, samples were hydrolyzed by 0.09 M HCl (final concentration) at 150ºC for 1 h. After neutralization with NaOH solution, the hydrolysate was measured by the 2,4,6-tripyridyl-triazine (TPTZ) method (Hung et al., 2001), with glucose as the standard. URA concentrations were determined by the metahydroxyphenyl method using glucuronic acid as the standard (Hung and Santschi, 2001).&nbsp;</p>
<p>All the solutions from the different extraction steps, including the &gt;3 kDa biopolymer fractions and the permeate (&lt; 3 kDa), were counted for the activity concentrations of 234Th, 233Pa, 210Pb and 7Be by a Canberra ultrahigh purity germanium well gamma detector. In addition, the 210Po activity in different separately incubated fractions was determined by Beckman Model 8100 Liquid Scintillation Counter.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1356453 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1356453
completed
Peter Santschi
Texas A&M, Galveston
4097404476
200 Seawolf Pkwy
Galveston
TX
77553
US
santschi@tamug.edu
pointOfContact
Antonietta Quigg
Texas A&M, Galveston
409-740-4990
200 Seawolf Pkwy
Galveston
TX
77553
quigga@tamug.edu
pointOfContact
Kathleen Schwehr
Texas A&M, Galveston
200 Seawolf Pkwy
Galveston
TX
77553
pointOfContact
Chen Xu
Texas A&M, Galveston
409-354-8312
200 Seawolf Pkwy
Galveston
TX
77553
xuc@tamug.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Biopolymer_Fraction
Th234_Activity
Pa233_Activity
Pb210_Activity
Po210_Activity
Be7_Activity
Protein_Amount
TCHO_Amount
URA_Amount
Protein_C_TCHO_C
URA_pcnt_TCHO
Beckman Coulter Allegra X-12 centrifuge
Canberra ultrahigh purity germanium well gamma detector
Beckman Model 8100 Liquid Scintillation Counter
UV-Visible spectrometer
theme
None, User defined
sample description
radioactive isotope concentration
protein concentration
carbohydrates
No BCO-DMO term
featureType
BCO-DMO Standard Parameters
Centrifuge
Gamma Ray Spectrometer
Liquid Scintillation Counter
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.
Biopolymers as carrier phases for selected natural radionuclides (of Th, Pa, Pb, Po, Be) in diatoms and coccolithophores
https://osprey.bco-dmo.org/project/735996
Biopolymers as carrier phases for selected natural radionuclides (of Th, Pa, Pb, Po, Be) in diatoms and coccolithophores
<p><span style="background-color:transparent; color:rgb(0, 0, 0); font-family:arial; font-size:11pt">NSF Award Abstract:</span></p>
<p>Particle-associated natural radioisotopes are transported to the ocean floor mostly via silica and carbonate ballasted particles, allowing their use as tracers for particle transport. Th(IV), Pa (IV,V), Po(IV), Pb(II) and Be(II) radionuclides are important proxies in oceanographic investigations, used for tracing particle and colloid cycling, estimating export fluxes of particulate organic carbon, tracing air-sea exchange, paleoproductivity, and/or ocean circulation in paleoceanographic studies. Even though tracer approaches are considered routine, there are cases where data interpretation or validity has become controversial, largely due to uncertainties about inorganic proxies and organic carrier molecules. Recent studies showed that cleaned diatom frustules and pure silica particles, sorb natural radionuclides to a much lower extent (by 1-2 orders of magnitude) than whole diatom cells (with or without shells). Phytoplankton that build siliceous or calcareous shells, such as the diatoms and coccolithophores, are assembled via bio-mineralization processes using biopolymers as nanoscale templates. These templates could serve as possible carriers for radionuclides and stable metals.</p>
<p>In this project, a research team at the Texas A & M University at Galveston hypothesize that radionuclide sorption is controlled by selective biopolymers that are associated with biogenic opal (diatoms), CaCO3 (coccolithophores) and the attached exopolymeric substances (EPS), rather than to pure mineral phase. To pursue this idea, the major objectives of their research will include separation, identification and molecular-level characterization of the individual biopolymers (e.g., polysaccharides, uronic acids, proteins, hydroquinones, hydroxamate siderophores, etc.) that are responsible for binding different radionuclides (Th, Pa, Pb, Po and Be) attached to cells or in the matrix of biogenic opal or CaCO3 as well as attached EPS mixture, in laboratory grown diatom and coccolithophore cultures. Laboratory-scale radiolabeling experiments will be conducted, and different separation techniques and characterization techniques will be applied.</p>
<p>Intellectual Merit : It is expected that this study will help elucidate the molecular basis of the templated growth of diatoms and coccoliths, EPS and their role in scavenging natural radionuclides in the ocean, and help resolve debates on the oceanographic tracer applications of different natural radioisotopes (230,234Th, 231Pa, 210Po, 210Pb and 7,10Be). The proposed interdisciplinary research project will require instrumental approaches for molecular-level characterization of these radionuclides associated carrier molecules.</p>
<p>Broader Impacts: The results of this study will be relevant for understanding biologically mediated ocean scavenging of radionuclides by diatoms and coccoliths which is important for carbon cycling in the ocean, and will contribute to improved interpretation of data obtained by field studies especially through the GEOTRACES program. This new program will enhance training programs at TAMUG for postdocs, graduate and undergraduate students. Lastly, results will be integrated in college courses and out-reach activities at Texas A&M University, including NSF-REU, Sea Camp, Elder Hostel and exhibits at the local science fair and interaction with its after-school program engaging Grade 9-12 students from groups traditionally underrepresented.</p>
Biopolymers for radionuclides
largerWorkCitation
project
eng; USA
oceans
2018-05-15
0
BCO-DMO catalogue of parameters from Coccolithophore-associated organic biopolymers for fractionating particle-reactive radionuclides (234Th, 233Pa, 210Pb, 210Po, and 7Be)
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/738808.rdf
Name: Biopolymer_Fraction
Units: unitless
Description: <p>biopolymer fraction of E. huxleyi cells</p>
http://lod.bco-dmo.org/id/dataset-parameter/738809.rdf
Name: Th234_Activity
Units: unitless
Description: <p>percentage of 234Th activity (%)</p>
http://lod.bco-dmo.org/id/dataset-parameter/738810.rdf
Name: Pa233_Activity
Units: unitless
Description: <p>percentage of 233Pa activity (%)</p>
http://lod.bco-dmo.org/id/dataset-parameter/738811.rdf
Name: Pb210_Activity
Units: unitless
Description: <p>percentage of 210Pb activity (%)</p>
http://lod.bco-dmo.org/id/dataset-parameter/738812.rdf
Name: Po210_Activity
Units: unitless
Description: <p>percentage of 210Po activity (%)</p>
http://lod.bco-dmo.org/id/dataset-parameter/738813.rdf
Name: Be7_Activity
Units: unitless
Description: <p>percentage of 7Be activity (%)</p>
http://lod.bco-dmo.org/id/dataset-parameter/738814.rdf
Name: Protein_Amount
Units: microMole Carbon (uM-C)
Description: <p>amount of organic protein component</p>
http://lod.bco-dmo.org/id/dataset-parameter/738815.rdf
Name: TCHO_Amount
Units: microMole Carbon (uM-C)
Description: <p>amount of organic total carbohydrate component</p>
http://lod.bco-dmo.org/id/dataset-parameter/738816.rdf
Name: URA_Amount
Units: microMole Carbon (uM-C)
Description: <p>amount of organic Uronic acid component</p>
http://lod.bco-dmo.org/id/dataset-parameter/738817.rdf
Name: Protein_C_TCHO_C
Units: unitless
Description: <p>ratio of proteins to total carbohydrates</p>
http://lod.bco-dmo.org/id/dataset-parameter/738818.rdf
Name: URA_pcnt_TCHO
Units: unitless
Description: <p>the percentage of the uronic acid in the bulk total carbohydrates pool</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
470
https://darchive.mblwhoilibrary.org/bitstream/1912/23931/1/dataset-738772_coccolithophore-associated-biopolymers-radionuclides__v1.tsv
download
https://doi.org/10.1575/1912/bco-dmo.738772.1
download
onLine
dataset
<p>The seawater (&lt; 1 kDa) was enriched with f/2 nutrients, trace metals and vitamins, and autoclaved in pre-combusted and seawater-preconditioned clear glassware. Then, ~50 Bq of each gamma emitting radionuclide, including 234Th, 233Pa, 210Pb and 7Be, was added. Since 210Po emits no gamma radiation, 210Po was added separately into the seawater. After checking the pH of each radiolabeled medium to be 8.0, 2 mL of laboratory axenic Emiliania huxleyi (CCMP 371) was added to 100 mL of media and incubated at a temperature of 19±1ºC with a light:dark cycle of 14 h:10 h under an irradiation condition of 100 µmol-quanta/m2/s.</p>
<p>Non-attached exopolymeric substances (NAEPS) and exopolymeric substances attached on the coccolithophore cellular surface (AEPS) were extracted followed the procedures described in Chuang et al. (2015) and Xu et al. (2011). In brief, laboratory cultures were centrifuged at 3000 ×g for 30 min, and then the supernatant for the NAEPS fraction was filtered, followed by the concentration and extensive desalting of supernatant against nanopure water (18.2 Ω) with 3 kDa Microsep centrifugal filter tubes (Milipore). For AEPS extraction, the resultant pellet from the centrifugation was resuspended by 50 mL 3% NaCl solution and stirred gently overnight at 4ºC. Lastly, the solution was centrifuged, and the supernatant containing the AEPS was then filtered before further desalting via the 3 kDa ultrafiltration centrifugation tubes. The pellet from the previous step was thus further digested in the 0.44 M HAc + 0.1 M NaCl solution at 4ºC for 8 h. After the digestion, the mixed solution was centrifuged and filtered, followed by ultrafiltration of the supernatant with 3 kDa Microsep centrifugal filter tubes. The retentate (&gt; 3 kDa) was defined as coccosphere-associated biopolymers. The permeate (&lt;3 kDa), defined as the fraction of digested biogenic calcite. Cells remaining from the last step was further heated in 20 mL of 1% SDS containing 10 mM Tris solution (pH 6.8) at 95 ºC for 1 h. The supernatant was also collected through centrifugation and filtration, followed by desalting and concentration with 3 kDa Microsep centrifugal filter tubes. Subsequently, the pellet was further digested by 0.04 M NH2OH HCl + 4.35 M HAc mixture at 96 ºC for 6 h, with occasional agitation to obtain the intracellular Fe-Mn associated metabolitic biopolymer. The sum of these two fractions represents the intracellular biopolymers after cell breakage.</p>
<p>Subsamples were taken from the concentrated biopolymers for the analysis of protein, total carbohydrate (TCHO) and uronic acid (URA), respectively. In brief, the protein abundance was measured through a modified Lowry protein assay, using bovine serum albumin (BSA) as the standard. For the concentrations of TCHO, samples were hydrolyzed by 0.09 M HCl (final concentration) at 150ºC for 1 h. After neutralization with NaOH solution, the hydrolysate was measured by the 2,4,6-tripyridyl-triazine (TPTZ) method (Hung et al., 2001), with glucose as the standard. URA concentrations were determined by the metahydroxyphenyl method using glucuronic acid as the standard (Hung and Santschi, 2001).&nbsp;</p>
<p>All the solutions from the different extraction steps, including the &gt;3 kDa biopolymer fractions and the permeate (&lt; 3 kDa), were counted for the activity concentrations of 234Th, 233Pa, 210Pb and 7Be by a Canberra ultrahigh purity germanium well gamma detector. In addition, the 210Po activity in different separately incubated fractions was determined by Beckman Model 8100 Liquid Scintillation Counter.</p>
Specified by the Principal Investigator(s)
<p>BCO-DMO Processing Notes:<br />
*&nbsp;added conventional header with dataset name, PI name, version date<br />
* modified parameter names to conform with BCO-DMO naming conventions<br />
* reorganized data from two tables into one table</p>
<p>&nbsp;</p>
<p>&nbsp;</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
Beckman Coulter Allegra X-12 centrifuge
Beckman Coulter Allegra X-12 centrifuge
PI Supplied Instrument Name: Beckman Coulter Allegra X-12 centrifuge PI Supplied Instrument Description:Beckman Coulter Allegra X-12 centrifuge Instrument Name: Centrifuge Instrument Short Name: Instrument Description: A machine with a rapidly rotating container that applies centrifugal force to its contents, typically to separate fluids of different densities (e.g., cream from milk) or liquids from solids.
Canberra ultrahigh purity germanium well gamma detector
Canberra ultrahigh purity germanium well gamma detector
PI Supplied Instrument Name: Canberra ultrahigh purity germanium well gamma detector PI Supplied Instrument Description:Canberra ultrahigh purity germanium well gamma detector Model GCW3024 Instrument Name: Gamma Ray Spectrometer Instrument Short Name: Instrument Description: Instruments measuring the relative levels of electromagnetic radiation of different wavelengths in the gamma-ray waveband.
Beckman Model 8100 Liquid Scintillation Counter
Beckman Model 8100 Liquid Scintillation Counter
PI Supplied Instrument Name: Beckman Model 8100 Liquid Scintillation Counter PI Supplied Instrument Description:Beckman Model 8100 Liquid Scintillation Counter Instrument Name: Liquid Scintillation Counter Instrument Short Name:LSC Instrument Description: Liquid scintillation counting is an analytical technique which is defined by the incorporation of the radiolabeled analyte into uniform distribution with a liquid chemical medium capable of converting the kinetic energy of nuclear emissions into light energy. Although the liquid scintillation counter is a sophisticated laboratory counting system used to quantify the activity of particulate emitting (ß and a) radioactive samples, it can also detect the auger electrons emitted from 51Cr and 125I samples.
Liquid scintillation counters are instruments assaying alpha and beta radiation by quantitative detection of visible light produced by the passage of rays or particles through a suitable scintillant incorporated into the sample. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB21/
UV-Visible spectrometer
UV-Visible spectrometer
PI Supplied Instrument Name: UV-Visible spectrometer PI Supplied Instrument Description:UV-Visible spectrometer, BioTek Instruments Inc Model EPOCH Instrument Name: Spectrometer Instrument Short Name:Spectrometer Instrument Description: A spectrometer is an optical instrument used to measure properties of light over a specific portion of the electromagnetic spectrum. Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0460/