http://lod.bco-dmo.org/id/dataset/558538
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
2015-05-15
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
HPLC pigments along the US GEOTRACES East Pacific Zonal Transect from the R/V Thomas G. Thompson TN303 cruise in the tropical Pacific from Peru to Tahiti during 2013 (U.S. GEOTRACES EPZT project)
2017-05-16
publication
2017-05-16
revision
BCO-DMO Linked Data URI
2017-05-16
creation
http://lod.bco-dmo.org/id/dataset/558538
James W. Moffett
University of Southern California
principalInvestigator
Gregory A. Cutter
Old Dominion University
principalInvestigator
Christopher R. German
Woods Hole Oceanographic Institution
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: Moffett, J. W., German, C. R., Cutter, G. A. (2017) HPLC pigments along the US GEOTRACES East Pacific Zonal Transect from the R/V Thomas G. Thompson TN303 cruise in the tropical Pacific from Peru to Tahiti during 2013 (U.S. GEOTRACES EPZT project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 16 May 2017) Version Date 2017-05-16 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/558538 [access date]
Bidigare Pigments Dataset Description: <p>Bidigare Pigments</p>
<p><strong>Notes on the data:</strong><br />
Parameter names were modified on 16 May 2017 to comply with SCOR Working Group 78 (<a href="http://www.scor-int.org/SCOR_WGs_WG78.htm" target="_blank">http://www.scor-int.org/SCOR_WGs_WG78.htm</a>).<br />
Pigment values are concentrations in ng/L.</p>
<p>Where the value is shown as zero, this could more properly be stated as "less than limit of detection".<br />
See LoD estimates below.<br />
<br />
Filtered volume amounts were obtained from the hand written cast sheets.<br />
They are listed with these data simply for reference in case one has different values listed elsewhere.<br />
<br />
<strong>Station 21:</strong> No depths are listed for Station 21 because these were not available on the cast sheets.<br />
<br />
The response factor for DIADINO was used to calculate DIATO&nbsp;values.<br />
<br />
<strong>Station 2:</strong> It is possible that some HEX FUCO is present.&nbsp;The high levels of FUCO at this station resulted in correspondingly large cis-fuco peaks, one of which eluted at the same retention time as HEX FUCO would elute if present, so HEX FUCO cannot be quantified. The size of the peak is about "right" for it to be due mostly or entirely to cis-fuco, but some contribution from HEX FUCO cannot be ruled out.<br />
<br />
<strong>Station 4, sample 2373:</strong>&nbsp; Values for this one are oddly high for its location in the profile. I see no obvious errors on my end. Possible filter in wrong cryotube?<br />
<br />
<strong>LoD Estimates:</strong><br />
Volume Filtered (L) &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; 1.84&nbsp;&nbsp; &nbsp;2.00&nbsp;&nbsp; &nbsp;3.80&nbsp;&nbsp; &nbsp;4.00<br />
LoD for chlorophylls (ng/L) &nbsp; &nbsp;4.8 &nbsp; &nbsp; &nbsp;4.4 &nbsp; &nbsp;&nbsp;2.3 &nbsp; &nbsp; &nbsp;2.2<br />
LoD for carotenoids (ng/L) &nbsp; &nbsp; 3.2 &nbsp; &nbsp; 2.9 &nbsp; &nbsp; 1.5 &nbsp; &nbsp; &nbsp;1.5<br />
<br />
These values are calculated based on LoD for CHL A of 0.59 ng/injection and for ZEA of 0.39 ng/injection, with an injection volume of 0.2 mL and an extract volume of 3.0 mL.</p>
<p>Pigment values &lt;LOD were removed from the data set and reported as zeroes.&nbsp;Zeroes for this data set should be considered to mean &lt;LOD.&nbsp;<br />
<br />
<strong>Pigment = Abbreviation</strong><br />
Chlorophyllide a = CHLIDE_A<br />
Chlorophyll C = CHL_C_TOT<br />
Peridinin = PERID<br />
19'-butanoyloxyfucoxanthin = BUT_FUCO<br />
Fucoxanthin = FUCO<br />
19'-hexanoyloxyfucoxanthin = HEX_FUCO<br />
Prasinoxanthin = PRAS<br />
Violaxanthin = VIOLA<br />
Diadinoxanthin = DIADINO<br />
Alloxanthin = ALLO<br />
Diatoxanthin = DIATO<br />
Lutein = LUT<br />
Zeaxanthin = ZEA<br />
Chlorophyll b = CHL_B<br />
Alpha-carotene = ALPHA_CAR<br />
Beta-carotene = BETA_CAR<br />
Divinyl chlorphyll a = DV_CHL_A<br />
Monovinyl chlorophyll a = CHL_A<br />
Total chlorophyll a = CHL_A_DV_CHL_A</p> Methods and Sampling: <p><strong>Sampling and Analytical Methodology: </strong>(also described in the<strong>&nbsp;</strong><a href="http://dmoserv3.whoi.edu/data_docs/GEOTRACES/EPZT/Analysis_of_pigments_GEOTRACES.pdf">Analysis of Pigments PDF</a>)<br />
Water samples were collected in opaque bottles and filtered onto 25-mm Whatman GF/F glass fiber filters (nominal porosity of 0.7 um) using vacuum filtration (7-10 in Hg). Sample filters were folded in half and individually stored in folded packets of heavy-duty aluminum foil, then placed immediately in liquid nitrogen.&nbsp;</p>
<p>Filters for pigment analyses were extracted in 3 mL of HPLC-grade acetone in culture tubes along with 50 uL of an internal standard (canthaxanthin) at 4C for 24 hours. The extracts were then brought to room temperature, vortexed, and centrifuged for 5 minutes to remove cellular and filter debris. Mixtures of 1-mL extract plus 0.3-mL HPLC grade water were prepared in opaque autosampler vials and 200 uL injected onto a Varian 9012 HPLC system equipped with a Varian 9300 autosampler, a Timberline column heater (26C), and a Waters Spherisorb&nbsp;5-um ODS-2 analytical (4.6 x 250 mm) column and corresponding guard cartridge (7.5 x 4.6 mm).&nbsp;Pigments were detected with a ThermoSeparation Products UV2000 detector (l<sub>1</sub> = 436, l<sub>2</sub> = 450).&nbsp; A ternary solvent system was used for pigment analysis:&nbsp; Eluent A (methanol:0.5 M ammonium acetate, 80:20, v/v), Eluent B (acetonitrile:water, 87.5:12.5, v/v), and Eluent C (100 % ethyl acetate).&nbsp; Solvents A and B contained an additional 0.01 % 2,6-di-ter-butyl-<em>p</em>-cresol (0.01 % BHT, w/v; Sigma-Aldrich) to prevent the conversion of chlorophyll a into chlorophyll a allomers.&nbsp; The linear gradient used for pigment separation was a modified version of the Wright et al. (1991) method: 0.0’ (90 % A, 10 % B), 1.00’ (100 % B), 11.00’ (78 % B, 22 % C), 27.50’ (10 % B, 90 % C), 29.00’ (100 % B), 30.00’ (100 % B), 31.00’ (95 % A, 5 % B), 37.00’ (95 % A, 5 % B), and 38.00’ (90 % A, 10 % B) (Bidigare et al., 2005).&nbsp; Eluent flow rate was held constant at 1.0 mL per min.</p>
<p>Pigment peaks were identified by comparison of retention times with those of pure pigment standards (DHI Lab Products, Hørsholm, Denmark) and extracts prepared from phytoplankton reference cultures.&nbsp;Pigment concentrations were calculated using internal and external standards, and expressed as concentrations (ng pigment per L of filtered seawater).&nbsp;A dichromatic equation was used to resolve mixtures of monovinyl and divinyl chlorophyll <em>a</em>&nbsp;spectrally (Bidigare and Trees, 2000).&nbsp;</p>
<p>Stable detector response was confirmed on a weekly basis using freshly prepared chlorophyll <em>a</em> standard.&nbsp;Chlorophyll <em>a</em> standard injections were also run concurrently with samples as a daily QC check.&nbsp;An internal standard was used to account for extraction volume variability.</p>
<p>Lower limit of detection for the HPLC analytical method is 0.39 ng per inj&nbsp;for carotenoids and 0.59 ng per&nbsp;inj&nbsp;for chlorophylls.&nbsp;Precision for the analytical method is 0.81 %RSD for carotenoids and 1.40 %RSD for chlorophylls as determined from the mean (x̅) and standard deviation (s) of replicate injections (n = 30) and calculated as 100 times |s/x̅|.&nbsp; Accuracy for this analytical method is estimated as ~0.5% based on the uncertainty in the absorbance measurement of chlorophyll a standard.</p>
<p><strong>References:</strong><br />
Bidigare, R.R., Van Heukelem, L., Trees, C.C., 2005. Analysis of algal pigments by high-performance liquid chromatography. In: Andersen, R. (Ed.), Algal Culturing Techniques. Academic Press, pp. 327-345.</p>
<p>Wright, S.W., Jeffrey, S.W., Mantoura, R.F.C., Llewellyn, C.A., Bjornland, T., Repeta, D., Welschmeyer, N., 1991. Improved HPLC method for the analysis of chlorophylls and carotenoids from marine phytoplankton. Marine Ecology Progress Series 77, 183-196.</p>
<p>Bidigare, R.R., Trees, C.C., 2000. HPLC phytoplankton pigments: sampling, laboratory methods, and quality assurance procedures. In: Mueller, J.L., Gargion, G. (Eds.), Ocean Optics Protocols for Satellite Ocean Color Sensor Validation, Revision 2, NASA Technical Memo, 2000209966, pp. 154-161.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1235248 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1235248
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1130870 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1130870
completed
James W. Moffett
University of Southern California
213-740-5626
Biological Sciences, Earth Sciences, and Civil and Environmental Engineering 3616 Trousdale Pkwy
Los Angeles
CA
90089
USA
jmoffett@usc.edu
pointOfContact
Gregory A. Cutter
Old Dominion University
757-683-4929
Department of Ocean, Earth, and Atmospheric Sciences 4500 Elkhorn Ave
Norfolk
VA
23529-0276
USA
gcutter@odu.edu
pointOfContact
Christopher R. German
Woods Hole Oceanographic Institution
508-289-2853
266 Woods Hole Rd Clark South 276 (MS #24)
Woods Hole
MA
02543
USA
cgerman@whoi.edu
pointOfContact
asNeeded
Dataset Version: 16 May 2017
Unknown
EXPOCODE
SECT_ID
STNNBR
CASTNO
GEOTRC_EVENTNO
DATE
TIME
ISO_DATETIME
LATITUDE
LONGITUDE
GEOTRC_INSTR
GEOTRC_SAMPNO
SAMPNO
BTLNBR
BTLNBR_FLAG_W
BTL_DATE
BTL_TIME
BTL_ISO_DATETIME
BTL_LAT
BTL_LON
Station
Depth
L_FILTERED
CHLIDE_A
CHL_C_TOT
PERID
BUT_FUCO
FUCO
HEX_FUCO
PRAS
VIOLA
DIADINO
ALLO
DIATO
LUT
ZEA
CHL_B
ALPHA_CAR
BETA_CAR
DV_CHL_A
CHL_A
CHL_A_DV_CHL_A
GO-FLO
Niskin bottle
theme
None, User defined
cruise name
station
cast
event
date
time of day
ISO_DateTime_UTC
latitude
longitude
instrument
sample identification
bottle
flag
depth
volume of water filtered
chlorophyllide a
chlorophyll c total
peridinin
19-prime-butanoyloxyfucoxanthin
fucoxanthin
19-prime-hexanoyloxyfucoxanthin
prasinoxanthin
violaxanthin
diadinoxanthin
alloxanthin
diatoxanthin
lutein
zeaxanthin
chlorophyll b
carotene-alpha
carotene-beta
divinyl chlorophyll a
monovinyl chlorophyll a
sum of chlorophyll a like compounds
featureType
BCO-DMO Standard Parameters
CTD Sea-Bird SBE 911plus
GO-FLO Bottle
Niskin bottle
instrument
BCO-DMO Standard Instruments
TN303
service
Deployment Activity
Eastern Tropical Pacific - Transect from Peru to Tahiti
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.
U.S. GEOTRACES
http://www.geotraces.org/
U.S. GEOTRACES
GEOTRACES is a SCOR sponsored program; and funding for program infrastructure development is provided by the U.S. National Science Foundation.
GEOTRACES gained momentum following a special symposium, S02: Biogeochemical cycling of trace elements and isotopes in the ocean and applications to constrain contemporary marine processes (GEOSECS II), at a 2003 Goldschmidt meeting convened in Japan. The GEOSECS II acronym referred to the Geochemical Ocean Section Studies To determine full water column distributions of selected trace elements and isotopes, including their concentration, chemical speciation, and physical form, along a sufficient number of sections in each ocean basin to establish the principal relationships between these distributions and with more traditional hydrographic parameters;
* To evaluate the sources, sinks, and internal cycling of these species and thereby characterize more completely the physical, chemical and biological processes regulating their distributions, and the sensitivity of these processes to global change; and
* To understand the processes that control the concentrations of geochemical species used for proxies of the past environment, both in the water column and in the substrates that reflect the water column.
GEOTRACES will be global in scope, consisting of ocean sections complemented by regional process studies. Sections and process studies will combine fieldwork, laboratory experiments and modelling. Beyond realizing the scientific objectives identified above, a natural outcome of this work will be to build a community of marine scientists who understand the processes regulating trace element cycles sufficiently well to exploit this knowledge reliably in future interdisciplinary studies.
Expand "Projects" below for information about and data resulting from individual US GEOTRACES research projects.
U.S. GEOTRACES
largerWorkCitation
program
U.S. GEOTRACES East Pacific Zonal Transect (GP16)
http://www.geotraces.org/
U.S. GEOTRACES East Pacific Zonal Transect (GP16)
<p><strong>From the NSF Award Abstract</strong><br />
The mission of the International GEOTRACES Program (<a href="https://www.geotraces.org/" target="_blank">https://www.geotraces.org/</a>), of which the U.S. chemical oceanography research community is a founding member, is "to identify processes and quantify fluxes that control the distributions of key trace elements and isotopes in the ocean, and to establish the sensitivity of these distributions to changing environmental conditions" (GEOTRACES Science Plan, 2006). In the United States, ocean chemists are currently in the process of organizing a zonal transect in the eastern tropical South Pacific (ETSP) from Peru to Tahiti as the second cruise of the U.S.GEOTRACES Program. This Pacific section includes a large area characterized by high rates of primary production and particle export in the eastern boundary associated with the Peru Upwelling, a large oxygen minimum zone that is a major global sink for fixed nitrogen, and a large hydrothermal plume arising from the East Pacific Rise. This particular section was selected as a result of open planning workshops in 2007 and 2008, with a final recommendation made by the U.S.GEOTRACES Steering Committee in 2009. It is the first part of a two-stage plan that will include a meridional section of the Pacific from Tahiti to Alaska as a subsequent expedition.</p>
<p>This award provides funding for management of the U.S.GEOTRACES Pacific campaign to a team of scientists from the University of Southern California, Old Dominion University, and the Woods Hole Oceanographic Institution. The three co-leaders will provide mission leadership, essential support services, and management structure for acquiring the trace elements and isotopes samples listed as core parameters in the International GEOTRACES Science Plan, plus hydrographic and nutrient data needed by participating investigators. With this support from NSF, the management team will (1) plan and coordinate the 52-day Pacific research cruise described above; (2) obtain representative samples for a wide variety of trace metals of interest using conventional CTD/rosette and GEOTRACES Sampling Systems; (3) acquire conventional JGOFS/WOCE-quality hydrographic data (CTD, transmissometer, fluorometer, oxygen sensor, etc) along with discrete samples for salinity, dissolved oxygen (to 1 uM detection limits), plant pigments, redox tracers such as ammonium and nitrite, and dissolved nutrients at micro- and nanomolar levels; (4) ensure that proper QA/QC protocols are followed and reported, as well as fulfilling all GEOTRACES Intercalibration protocols; (5) prepare and deliver all hydrographic-type data to the GEOTRACES Data Center (and US data centers); and (6) coordinate cruise communications between all participating investigators, including preparation of a hydrographic report/publication.</p>
<p>Broader Impacts: The project is part of an international collaborative program that has forged strong partnerships in the intercalibration and implementation phases that are unprecedented in chemical oceanography. The science product of these collective missions will enhance our ability to understand how to interpret the chemical composition of the ocean, and interpret how climate change will affect ocean chemistry. Partnerships include contributions to the infrastructure of developing nations with overlapping interests in the study area, in this case Peru. There is a strong educational component to the program, with many Ph.D. students carrying out thesis research within the program.</p>
<p><em>Figure 1. The 2013 GEOTRACES EPZT Cruise Track. [click on the image to view a larger version]</em><br />
<a href="http://dmoserv3.whoi.edu/data_docs/GEOTRACES/EPZT/GEOTRACES_EPZT_TN303_CruiseTrack.png" target="_blank"><img alt="" src="https://datadocs.bco-dmo.org/d3/data_docs/GEOTRACES/EPZT/GEOTRACES_EPZT_TN303_CruiseTrack.png" /></a></p>
U.S. GEOTRACES EPZT
largerWorkCitation
project
eng; USA
oceans
Eastern Tropical Pacific - Transect from Peru to Tahiti
-152.0004
-77.3761
-16.0004
-10.5002
2013-10-29
2013-12-16
Eastern Tropical Pacific - Transect from Peru to Tahiti (GP16)
0
BCO-DMO catalogue of parameters from HPLC pigments along the US GEOTRACES East Pacific Zonal Transect from the R/V Thomas G. Thompson TN303 cruise in the tropical Pacific from Peru to Tahiti during 2013 (U.S. GEOTRACES EPZT 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/558556.rdf
Name: EXPOCODE
Units: text
Description: <p>expedition code assigned by the CCHDO: NODCShipCodeYearMonthDay</p>
http://lod.bco-dmo.org/id/dataset-parameter/558557.rdf
Name: SECT_ID
Units: text
Description: <p>cruise section identification number</p>
http://lod.bco-dmo.org/id/dataset-parameter/558558.rdf
Name: STNNBR
Units: dimensionless
Description: <p>station number</p>
http://lod.bco-dmo.org/id/dataset-parameter/558559.rdf
Name: CASTNO
Units: dimensionless
Description: <p>cast number</p>
http://lod.bco-dmo.org/id/dataset-parameter/558560.rdf
Name: GEOTRC_EVENTNO
Units: dimensionless
Description: <p>GEOTRACES Event Number</p>
http://lod.bco-dmo.org/id/dataset-parameter/558561.rdf
Name: DATE
Units: YYYYMMDD
Description: <p>Station Date (GMT)</p>
http://lod.bco-dmo.org/id/dataset-parameter/558562.rdf
Name: TIME
Units: HHMM
Description: <p>Station Time (GMT)</p>
http://lod.bco-dmo.org/id/dataset-parameter/558563.rdf
Name: ISO_DATETIME
Units: YYYY-MM-DDTHH:MM:SS[.xx]Z
Description: <p>Date/Time (ISO formatted) (GMT)</p>
http://lod.bco-dmo.org/id/dataset-parameter/558564.rdf
Name: LATITUDE
Units: decimal degrees
Description: <p>Station Latitude (South is negative)</p>
http://lod.bco-dmo.org/id/dataset-parameter/558565.rdf
Name: LONGITUDE
Units: decimal degrees
Description: <p>Station Longitude (West is negative)</p>
http://lod.bco-dmo.org/id/dataset-parameter/558566.rdf
Name: GEOTRC_INSTR
Units: text
Description: <p>GEOTRACES Instrument Id</p>
http://lod.bco-dmo.org/id/dataset-parameter/558567.rdf
Name: GEOTRC_SAMPNO
Units: dimensionless
Description: <p>GEOTRACES Sample Number</p>
http://lod.bco-dmo.org/id/dataset-parameter/558568.rdf
Name: SAMPNO
Units: dimensionless
Description: <p>sequential sample number within a cast</p>
http://lod.bco-dmo.org/id/dataset-parameter/558569.rdf
Name: BTLNBR
Units: text
Description: <p>Bottle Number</p>
http://lod.bco-dmo.org/id/dataset-parameter/558570.rdf
Name: BTLNBR_FLAG_W
Units: dimensionless
Description: <p>Bottle Quality Flag</p>
http://lod.bco-dmo.org/id/dataset-parameter/558571.rdf
Name: BTL_DATE
Units: YYYYMMDD
Description: <p>Bottle Date (GMT)</p>
http://lod.bco-dmo.org/id/dataset-parameter/558572.rdf
Name: BTL_TIME
Units: HHMM
Description: <p>Bottle Time (GMT)</p>
http://lod.bco-dmo.org/id/dataset-parameter/558573.rdf
Name: BTL_ISO_DATETIME
Units: YYYY-MM-DDTHH:MM:SS[.xx]Z
Description: <p>Bottle Date/Time (ISO formatted) (GMT)</p>
http://lod.bco-dmo.org/id/dataset-parameter/558574.rdf
Name: BTL_LAT
Units: decimal degrees
Description: <p>Bottle Latitude (South is negative)</p>
http://lod.bco-dmo.org/id/dataset-parameter/558575.rdf
Name: BTL_LON
Units: decimal degrees
Description: <p>Bottle Longitude (West is negative)</p>
http://lod.bco-dmo.org/id/dataset-parameter/558576.rdf
Name: Station
Units: dimensionless
Description: <p>Station Number</p>
http://lod.bco-dmo.org/id/dataset-parameter/558577.rdf
Name: Depth
Units: meters
Description: <p>Sample Depth</p>
http://lod.bco-dmo.org/id/dataset-parameter/558578.rdf
Name: L_FILTERED
Units: liters
Description: <p>Liters filtered</p>
http://lod.bco-dmo.org/id/dataset-parameter/558579.rdf
Name: CHLIDE_A
Units: ng/L
Description: <p>Chlorophyllide a</p>
http://lod.bco-dmo.org/id/dataset-parameter/558580.rdf
Name: CHL_C_TOT
Units: ng/L
Description: <p>Chlorophyll c</p>
http://lod.bco-dmo.org/id/dataset-parameter/558581.rdf
Name: PERID
Units: ng/L
Description: <p>Peridinin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558582.rdf
Name: BUT_FUCO
Units: ng/L
Description: <p>19'-butanoyloxyfucoxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558583.rdf
Name: FUCO
Units: ng/L
Description: <p>Fucoxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558584.rdf
Name: HEX_FUCO
Units: ng/L
Description: <p>19'-hexanoyloxyfucoxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558585.rdf
Name: PRAS
Units: ng/L
Description: <p>Prasinoxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558586.rdf
Name: VIOLA
Units: ng/L
Description: <p>Violaxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558587.rdf
Name: DIADINO
Units: ng/L
Description: <p>Diadinoxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558588.rdf
Name: ALLO
Units: ng/L
Description: <p>Alloxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558589.rdf
Name: DIATO
Units: ng/L
Description: <p>Diatoxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558590.rdf
Name: LUT
Units: ng/L
Description: <p>Lutein</p>
http://lod.bco-dmo.org/id/dataset-parameter/558591.rdf
Name: ZEA
Units: ng/L
Description: <p>Zeaxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558592.rdf
Name: CHL_B
Units: ng/L
Description: <p>Chlorophyll b</p>
http://lod.bco-dmo.org/id/dataset-parameter/558593.rdf
Name: ALPHA_CAR
Units: ng/L
Description: <p>Alpha-carotene</p>
http://lod.bco-dmo.org/id/dataset-parameter/558594.rdf
Name: BETA_CAR
Units: ng/L
Description: <p>Beta-carotene</p>
http://lod.bco-dmo.org/id/dataset-parameter/558595.rdf
Name: DV_CHL_A
Units: ng/L
Description: <p>Divinyl chlorphyll a</p>
http://lod.bco-dmo.org/id/dataset-parameter/558596.rdf
Name: CHL_A
Units: ng/L
Description: <p>Monovinyl chlorophyll a</p>
http://lod.bco-dmo.org/id/dataset-parameter/558597.rdf
Name: CHL_A_DV_CHL_A
Units: ng/L
Description: <p>Total chlorophyll a</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.
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33386
https://datadocs.bco-dmo.org/file/0AAMn1DtrmoNz1/Bidigare_Pigments.csv
Bidigare_Pigments.csv
Primary data file for dataset ID 558538
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<p><strong>Sampling and Analytical Methodology: </strong>(also described in the<strong>&nbsp;</strong><a href="http://dmoserv3.whoi.edu/data_docs/GEOTRACES/EPZT/Analysis_of_pigments_GEOTRACES.pdf">Analysis of Pigments PDF</a>)<br />
Water samples were collected in opaque bottles and filtered onto 25-mm Whatman GF/F glass fiber filters (nominal porosity of 0.7 um) using vacuum filtration (7-10 in Hg). Sample filters were folded in half and individually stored in folded packets of heavy-duty aluminum foil, then placed immediately in liquid nitrogen.&nbsp;</p>
<p>Filters for pigment analyses were extracted in 3 mL of HPLC-grade acetone in culture tubes along with 50 uL of an internal standard (canthaxanthin) at 4C for 24 hours. The extracts were then brought to room temperature, vortexed, and centrifuged for 5 minutes to remove cellular and filter debris. Mixtures of 1-mL extract plus 0.3-mL HPLC grade water were prepared in opaque autosampler vials and 200 uL injected onto a Varian 9012 HPLC system equipped with a Varian 9300 autosampler, a Timberline column heater (26C), and a Waters Spherisorb&nbsp;5-um ODS-2 analytical (4.6 x 250 mm) column and corresponding guard cartridge (7.5 x 4.6 mm).&nbsp;Pigments were detected with a ThermoSeparation Products UV2000 detector (l<sub>1</sub> = 436, l<sub>2</sub> = 450).&nbsp; A ternary solvent system was used for pigment analysis:&nbsp; Eluent A (methanol:0.5 M ammonium acetate, 80:20, v/v), Eluent B (acetonitrile:water, 87.5:12.5, v/v), and Eluent C (100 % ethyl acetate).&nbsp; Solvents A and B contained an additional 0.01 % 2,6-di-ter-butyl-<em>p</em>-cresol (0.01 % BHT, w/v; Sigma-Aldrich) to prevent the conversion of chlorophyll a into chlorophyll a allomers.&nbsp; The linear gradient used for pigment separation was a modified version of the Wright et al. (1991) method: 0.0’ (90 % A, 10 % B), 1.00’ (100 % B), 11.00’ (78 % B, 22 % C), 27.50’ (10 % B, 90 % C), 29.00’ (100 % B), 30.00’ (100 % B), 31.00’ (95 % A, 5 % B), 37.00’ (95 % A, 5 % B), and 38.00’ (90 % A, 10 % B) (Bidigare et al., 2005).&nbsp; Eluent flow rate was held constant at 1.0 mL per min.</p>
<p>Pigment peaks were identified by comparison of retention times with those of pure pigment standards (DHI Lab Products, Hørsholm, Denmark) and extracts prepared from phytoplankton reference cultures.&nbsp;Pigment concentrations were calculated using internal and external standards, and expressed as concentrations (ng pigment per L of filtered seawater).&nbsp;A dichromatic equation was used to resolve mixtures of monovinyl and divinyl chlorophyll <em>a</em>&nbsp;spectrally (Bidigare and Trees, 2000).&nbsp;</p>
<p>Stable detector response was confirmed on a weekly basis using freshly prepared chlorophyll <em>a</em> standard.&nbsp;Chlorophyll <em>a</em> standard injections were also run concurrently with samples as a daily QC check.&nbsp;An internal standard was used to account for extraction volume variability.</p>
<p>Lower limit of detection for the HPLC analytical method is 0.39 ng per inj&nbsp;for carotenoids and 0.59 ng per&nbsp;inj&nbsp;for chlorophylls.&nbsp;Precision for the analytical method is 0.81 %RSD for carotenoids and 1.40 %RSD for chlorophylls as determined from the mean (x̅) and standard deviation (s) of replicate injections (n = 30) and calculated as 100 times |s/x̅|.&nbsp; Accuracy for this analytical method is estimated as ~0.5% based on the uncertainty in the absorbance measurement of chlorophyll a standard.</p>
<p><strong>References:</strong><br />
Bidigare, R.R., Van Heukelem, L., Trees, C.C., 2005. Analysis of algal pigments by high-performance liquid chromatography. In: Andersen, R. (Ed.), Algal Culturing Techniques. Academic Press, pp. 327-345.</p>
<p>Wright, S.W., Jeffrey, S.W., Mantoura, R.F.C., Llewellyn, C.A., Bjornland, T., Repeta, D., Welschmeyer, N., 1991. Improved HPLC method for the analysis of chlorophylls and carotenoids from marine phytoplankton. Marine Ecology Progress Series 77, 183-196.</p>
<p>Bidigare, R.R., Trees, C.C., 2000. HPLC phytoplankton pigments: sampling, laboratory methods, and quality assurance procedures. In: Mueller, J.L., Gargion, G. (Eds.), Ocean Optics Protocols for Satellite Ocean Color Sensor Validation, Revision 2, NASA Technical Memo, 2000209966, pp. 154-161.</p>
Specified by the Principal Investigator(s)
<p>For data processing, refer to the <a href="http://dmoserv3.whoi.edu/data_docs/GEOTRACES/EPZT/Analysis_of_pigments_GEOTRACES.pdf">Analysis of Pigments PDF</a>.</p>
<p><strong>BCO-DMO Processing Notes</strong><br />
- Generated from original .xlsx file "GEOTRACES_May2014_final.xlsx, sheet: Pigment data" contributed by Jim Moffett<br />
- Station, cast, bottle and sample metadata inserted from EPZT Master_Event sheet<br />
- Parameter names were initially edited to conform to BCO-DMO naming convention found at <a href="http://usjgofs.whoi.edu/naming-guidelines.html" target="_blank">Choosing Parameter Name</a><br />
- Parameter names were again modified on 16 May 2017 to be compliant with SCOR Working Group 78</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
PI Supplied Instrument Name: Instrument Name: CTD Sea-Bird SBE 911plus Instrument Short Name:CTD SBE 911plus Instrument Description: The Sea-Bird SBE 911 plus is a type of CTD instrument package for continuous measurement of conductivity, temperature and pressure. The SBE 911 plus includes the SBE 9plus Underwater Unit and the SBE 11plus Deck Unit (for real-time readout using conductive wire) for deployment from a vessel. The combination of the SBE 9 plus and SBE 11 plus is called a SBE 911 plus. The SBE 9 plus uses Sea-Bird's standard modular temperature and conductivity sensors (SBE 3 plus and SBE 4). The SBE 9 plus CTD can be configured with up to eight auxiliary sensors to measure other parameters including dissolved oxygen, pH, turbidity, fluorescence, light (PAR), light transmission, etc.). more information from Sea-Bird Electronics Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0058/
GO-FLO
GO-FLO
PI Supplied Instrument Name: GO-FLO PI Supplied Instrument Description:CTD bottle data from 30-ODF/SIOR (Ocean Data Facility 12 bottle, 30 liter Niskin rosette) Instrument Name: GO-FLO Bottle Instrument Short Name:GO-FLO Instrument Description: GO-FLO bottle cast used to collect water samples for pigment, nutrient, plankton, etc. The GO-FLO sampling bottle is specially designed to avoid sample contamination at the surface, internal spring contamination, loss of sample on deck (internal seals), and exchange of water from different depths. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/30/
Niskin bottle
Niskin bottle
PI Supplied Instrument Name: Niskin bottle Instrument Name: Niskin bottle Instrument Short Name:Niskin bottle Instrument Description: A Niskin bottle (a next generation water sampler based on the Nansen bottle) is a cylindrical, non-metallic water collection device with stoppers at both ends. The bottles can be attached individually on a hydrowire or deployed in 12, 24, or 36 bottle Rosette systems mounted on a frame and combined with a CTD. Niskin bottles are used to collect discrete water samples for a range of measurements including pigments, nutrients, plankton, etc. Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0412/
Cruise: TN303
TN303
R/V Thomas G. Thompson
Community Standard Description
International Council for the Exploration of the Sea
R/V Thomas G. Thompson
vessel
TN303
James W. Moffett
University of Southern California
http://dmoserv3.whoi.edu/data_docs/GEOTRACES/EPZT/GT13_EPZT_ODFReport_All.pdf
Report describing TN303
R/V Thomas G. Thompson
Community Standard Description
International Council for the Exploration of the Sea
R/V Thomas G. Thompson
vessel