http://lod.bco-dmo.org/id/dataset/558893
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
2015-05-18
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Underway HPLC pigments from the RVIB Nathaniel B. Palmer NBP1302 cruise in the Ross Sea during 2013 (TRACERS project)
2015-05-18
publication
2015-05-18
revision
BCO-DMO Linked Data URI
2015-05-18
creation
http://lod.bco-dmo.org/id/dataset/558893
Giacomo DiTullio
Grice Marine Laboratory - College of Charleston
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: DiTullio, G. (2015) Underway HPLC pigments from the RVIB Nathaniel B. Palmer NBP1302 cruise in the Ross Sea during 2013 (TRACERS project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 18 May 2015) Version Date 2015-05-18 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/558893 [access date]
HPLC pigment analyses of underway collected samples on NBP1302 cruise Dataset Description: <p>HPLC pigment analyses of underway collected samples from the NBP1302 cruise (Ross Sea, Antarctica).</p> Methods and Sampling: <p>Water samples were collected from underway samples.</p>
<p>Chlorophyll and accessory pigment composition was analyzed by high performance liquid chromatography (HPLC; Agilent 1100). Culture aliquots were filtered on Whatmann GF/F filters, flash frozen in liquid nitrogen, and stored at -80°C until analysis. Just prior to analysis, pigments were extracted overnight in acetone at -20°C. The following day extracted pigments were centrifuged and measured using a gradient elution method (DiTullio and Geesey, 2003), a modification of the Zapata et al 2000 method. Chromatographic separation was performed using a Waters C8 symmetry column, photodiode array and fluorescence detectors. The internal standard, β-Apo-8-carotenal-trans standard (Fluka Chemical Corp., USA) was added to extracted pigments as a peak reference. Individual pigment peaks were quantified with Chemstation software (revision B.03.01, Agilent) and our pigment action spectra library calibrated using pigment standards from DHI LABS (Hoersholm, Denmark) and in-house purifications of non-commercially available pigments. Coefficient of variation among replicate HPLC injections is &lt; 3% and our limit of detection is approximately 1 ng L-1.</p>
<p><a href="http://www.usap.gov/vesselScienceAndOperations/contentHandler.cfm?id=1561" target="_blank">Nathaniel B. Palmer Systems and Specifications</a></p>
Funding provided by NSF Division of Polar Programs (NSF PLR) Award Number: PLR-1142065 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1142065
onGoing
Giacomo DiTullio
Grice Marine Laboratory - College of Charleston
843-953-9196
Hollings Marine Lab 205 Fort Johnson Rd.
Charleston
SC
29412
USA
ditullioj@cofc.edu
pointOfContact
asNeeded
Dataset Version: 18 May 2015
Unknown
Sample_Num
Date
Time
ISO_Date_Time
Latitude
Longitude
Filt_vol
Chl_C3
Chl_lide
MgDvp
Chl_C2
Chl_C1
Peridinin
Ph_ide
But19
Fuco
Neo
Prasino
Viola
Hex19
DD
cis_Fuco
Allo
Diato
Monad
Zeax
Lutein
Croco
Chl_b
Chlorophyll_c2_MGDG
Chlorophyll_a_allomer
DV_Chl_a
Chl_a
Ph_tin
a_Car
b_Car
Total_Chl_a
Trimble GPS - PCODE
HPLC
Underway Seawater System
theme
None, User defined
sample identification
date
time of day
ISO_DateTime_UTC
latitude
longitude
volume of water filtered
chlorophyll c3
chlorophyllide
mg_dvp_a5
chlorophyll c2
chlorophyll c1
peridinin
pheophorbide a
19-prime-butanoyloxyfucoxanthin
fucoxanthin
neoxanthin
prasinoxanthin
violaxanthin
19-prime-hexanoyloxyfucoxanthin
diadinoxanthin
cis-fucoxanthin
alloxanthin
diatoxanthin
monad
zeaxanthin
lutein
crocoxanthin pigment
chlorophyll b
chlorophyll a
divinyl chlorophyll a
pheophytin a
carotene-alpha
carotene-beta
sum of chlorophyll a like compounds
featureType
BCO-DMO Standard Parameters
Global Positioning System Receiver
High-Performance Liquid Chromatograph
Pump - Surface Underway Ship Intake
instrument
BCO-DMO Standard Instruments
NBP1302
service
Deployment Activity
Ross Sea
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.
TRacing the fate of Algal Carbon Export in the Ross Sea
https://osprey.bco-dmo.org/project/547771
TRacing the fate of Algal Carbon Export in the Ross Sea
<p>Sinking particles are a major element of the biological pump and they are commonly assigned to two fates: mineralization in the water column and accumulation at the seafloor. However, there is another fate of export hidden within the vertical decline of carbon, the transformation of sinking organic matter to fine suspended and/or dissolved organic fractions. This process has been suggested but has rarely been observed or quantified. As a result, it is presumed that the solubilized fraction is largely mineralized over short time scales. However, global ocean surveys of dissolved organic carbon are demonstrating a significant water column accumulation of organic matter under high productivity environments. This proposal will investigate the transformation of organic particles from sinking to solubilized phases of the export flux in the Ross Sea. The Ross Sea experiences high export particle production, low dissolved organic carbon export with overturning circulation, and the area has a predictable succession of production and export events. In addition, the basin is shallow (< 1000 m) so the products the PIs will target are relatively concentrated. To address the proposed hypothesis, the PIs will use both well-established and novel biochemical and optical measures of export production and its fate. The outcomes of this work will help researchers close the carbon budget in the Ross Sea.</p>
TRACERS
largerWorkCitation
project
eng; USA
oceans
Ross Sea
2015-05-18
Ross Sea
0
BCO-DMO catalogue of parameters from Underway HPLC pigments from the RVIB Nathaniel B. Palmer NBP1302 cruise in the Ross Sea during 2013 (TRACERS 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/558921.rdf
Name: Sample_Num
Units: integer
Description: <p>Sample Number</p>
http://lod.bco-dmo.org/id/dataset-parameter/558922.rdf
Name: Date
Units: YYYYMMDD
Description: <p>Date (GMT)</p>
http://lod.bco-dmo.org/id/dataset-parameter/558923.rdf
Name: Time
Units: HHMM
Description: <p>Time (GMT)</p>
http://lod.bco-dmo.org/id/dataset-parameter/558924.rdf
Name: ISO_Date_Time
Units: YYYY-MM-DDTHH:MM:SS[.xx]Z
Description: <p>Date/Time (GMT (ISO formatted)</p>
http://lod.bco-dmo.org/id/dataset-parameter/558925.rdf
Name: Latitude
Units: decimal degrees
Description: <p>Latitude (South is negative)</p>
http://lod.bco-dmo.org/id/dataset-parameter/558926.rdf
Name: Longitude
Units: decimal degrees
Description: <p>Longitude (West is negative)</p>
http://lod.bco-dmo.org/id/dataset-parameter/558927.rdf
Name: Filt_vol
Units: liters
Description: <p>Volume Filtered</p>
http://lod.bco-dmo.org/id/dataset-parameter/558929.rdf
Name: Chl_C3
Units: ng/L
Description: <p>Chlorophyll c3</p>
http://lod.bco-dmo.org/id/dataset-parameter/558930.rdf
Name: Chl_lide
Units: ng/L
Description: <p>Chlorophyllide</p>
http://lod.bco-dmo.org/id/dataset-parameter/558931.rdf
Name: MgDvp
Units: ng/L
Description: <p>Magnesium-2;4-divinyl</p>
http://lod.bco-dmo.org/id/dataset-parameter/558932.rdf
Name: Chl_C2
Units: ng/L
Description: <p>Chlorophyll c2</p>
http://lod.bco-dmo.org/id/dataset-parameter/558933.rdf
Name: Chl_C1
Units: ng/L
Description: <p>Chlorophyll c1</p>
http://lod.bco-dmo.org/id/dataset-parameter/558934.rdf
Name: Peridinin
Units: ng/L
Description: <p>Peridinin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558935.rdf
Name: Ph_ide
Units: ng/L
Description: <p>Pheophorbide a</p>
http://lod.bco-dmo.org/id/dataset-parameter/558936.rdf
Name: But19
Units: ng/L
Description: <p>19'-butanoyloxyfucoxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558937.rdf
Name: Fuco
Units: ng/L
Description: <p>Fucoxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558938.rdf
Name: Neo
Units: ng/L
Description: <p>Neoxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558939.rdf
Name: Prasino
Units: ng/L
Description: <p>Prasinoxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558940.rdf
Name: Viola
Units: ng/L
Description: <p>Violaxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558941.rdf
Name: Hex19
Units: ng/L
Description: <p>19'-hexanoyloxyfucoxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558942.rdf
Name: DD
Units: ng/L
Description: <p>Diadinoxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558943.rdf
Name: cis_Fuco
Units: ng/L
Description: <p>cis-Fucoxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558944.rdf
Name: Allo
Units: ng/L
Description: <p>Alloxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558945.rdf
Name: Diato
Units: ng/L
Description: <p>Diatoxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558946.rdf
Name: Monad
Units: ng/L
Description: <p>Monadoxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558947.rdf
Name: Zeax
Units: ng/L
Description: <p>Zeaxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558948.rdf
Name: Lutein
Units: ng/L
Description: <p>Lutein</p>
http://lod.bco-dmo.org/id/dataset-parameter/558949.rdf
Name: Croco
Units: ng/L
Description: <p>Crocoxanthin</p>
http://lod.bco-dmo.org/id/dataset-parameter/558950.rdf
Name: Chl_b
Units: ng/L
Description: <p>Chlorophyll b</p>
http://lod.bco-dmo.org/id/dataset-parameter/558951.rdf
Name: Chlorophyll_c2_MGDG
Units: ng/L
Description: <p>Chlorophyll c2 MGDG</p>
http://lod.bco-dmo.org/id/dataset-parameter/558952.rdf
Name: Chlorophyll_a_allomer
Units: ng/L
Description: <p>Chlorophyll a allomer</p>
http://lod.bco-dmo.org/id/dataset-parameter/558953.rdf
Name: DV_Chl_a
Units: ng/L
Description: <p>Divinyl chlorphyll a</p>
http://lod.bco-dmo.org/id/dataset-parameter/558954.rdf
Name: Chl_a
Units: ng/L
Description: <p>Chlorophyll a</p>
http://lod.bco-dmo.org/id/dataset-parameter/558955.rdf
Name: Ph_tin
Units: ng/L
Description: <p>Phaeophytin a</p>
http://lod.bco-dmo.org/id/dataset-parameter/558956.rdf
Name: a_Car
Units: ng/L
Description: <p>Alpha-carotene</p>
http://lod.bco-dmo.org/id/dataset-parameter/558957.rdf
Name: b_Car
Units: ng/L
Description: <p>Beta-carotene</p>
http://lod.bco-dmo.org/id/dataset-parameter/558958.rdf
Name: Total_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.
pointOfContact
32354
https://datadocs.bco-dmo.org/file/rggpGJVTQ0Egl/HPLC_Pigments_UW.csv
HPLC_Pigments_UW.csv
Primary data file for dataset ID 558893
download
https://osprey.bco-dmo.org/dataset/558893/data/download
download
onLine
dataset
<p>Water samples were collected from underway samples.</p>
<p>Chlorophyll and accessory pigment composition was analyzed by high performance liquid chromatography (HPLC; Agilent 1100). Culture aliquots were filtered on Whatmann GF/F filters, flash frozen in liquid nitrogen, and stored at -80°C until analysis. Just prior to analysis, pigments were extracted overnight in acetone at -20°C. The following day extracted pigments were centrifuged and measured using a gradient elution method (DiTullio and Geesey, 2003), a modification of the Zapata et al 2000 method. Chromatographic separation was performed using a Waters C8 symmetry column, photodiode array and fluorescence detectors. The internal standard, β-Apo-8-carotenal-trans standard (Fluka Chemical Corp., USA) was added to extracted pigments as a peak reference. Individual pigment peaks were quantified with Chemstation software (revision B.03.01, Agilent) and our pigment action spectra library calibrated using pigment standards from DHI LABS (Hoersholm, Denmark) and in-house purifications of non-commercially available pigments. Coefficient of variation among replicate HPLC injections is &lt; 3% and our limit of detection is approximately 1 ng L-1.</p>
<p><a href="http://www.usap.gov/vesselScienceAndOperations/contentHandler.cfm?id=1561" target="_blank">Nathaniel B. Palmer Systems and Specifications</a></p>
Specified by the Principal Investigator(s)
<p>Response factors for pigments were performed using dilutions of calibration standards. Full details of data processing and methods used can be found in:<br />
DiTullio, G. R. &amp; Geesey, M. E. (2002) Photosynthetic pigments in marine algae and bacteria. In: BITTON, G. (ed.) The Encyclopedia of Environmental Microbiology. New York: John Wiley &amp; Sons Inc.</p>
<p><strong>BCO-DMO Processing Notes:</strong><br />
&nbsp;- Generated from original .xlsx file "NPB1302 BCO-DMO.xls, sheet: Underway Final" contributed by Emily Cooper<br />
&nbsp;- Parameter names 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 />
- Blanks (missing data) replaced with "nd" meaning "no data";<br />
- Date reformmated to YYYYMMDD<br />
- Time reformatted to HHMM<br />
- Added ISO_DateTime_UTC column from original DATE and TIME fields<br />
- Lat/Lon whole degs and minutes removed (decimal degrees preserved)<br />
- Lat/Lons recalculated to reflect correct hemisphere signage</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
Trimble GPS - PCODE
Trimble GPS - PCODE
PI Supplied Instrument Name: Trimble GPS - PCODE Instrument Name: Global Positioning System Receiver Instrument Short Name:GPS Instrument Description: The Global Positioning System (GPS) is a U.S. space-based radionavigation system that provides reliable positioning, navigation, and timing services to civilian users on a continuous worldwide basis. The U.S. Air Force develops, maintains, and operates the space and control segments of the NAVSTAR GPS transmitter system. Ships use a variety of receivers (e.g. Trimble and Ashtech) to interpret the GPS signal and determine accurate latitude and longitude. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/POS03/
HPLC
HPLC
PI Supplied Instrument Name: HPLC PI Supplied Instrument Description:Chlorophyll and accessory pigment composition was analyzed by high performance liquid chromatography (HPLC; Agilent 1100). Instrument Name: High-Performance Liquid Chromatograph Instrument Short Name:HPLC Instrument Description: A High-performance liquid chromatograph (HPLC) is a type of liquid chromatography used to separate compounds that are dissolved in solution. HPLC instruments consist of a reservoir of the mobile phase, a pump, an injector, a separation column, and a detector. Compounds are separated by high pressure pumping of the sample mixture onto a column packed with microspheres coated with the stationary phase. The different components in the mixture pass through the column at different rates due to differences in their partitioning behavior between the mobile liquid phase and the stationary phase. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB11/
Underway Seawater System
Underway Seawater System
PI Supplied Instrument Name: Underway Seawater System PI Supplied Instrument Description:The seawater system supplies underway seawater to the Aquarium Room, Wet Lab,
Hydro Lab, Helo Deck, Helo Hangar, and Baltic Room. Green strand piping, a non-metal-
lic, chemically resistant material has been used throughout the system to minimize algae
and bacterial growth.
It also maintains its structural integrity under low temperatures. Large diameter piping and
a minimum of 90° turns helps prevent frazil ice formation in the system. The seawater
system is also equipped with a centrifugal ice strainer/de-bubbler.
Instrument Name: Pump - Surface Underway Ship Intake Instrument Short Name:Pump-Ship Intake Instrument Description: The 'Pump-underway ship intake' system indicates that samples are from the ship's clean water intake pump. This is essentially a surface water sample from a source of uncontaminated near-surface (commonly 3 to 7 m) seawater that can be pumped continuously to shipboard laboratories on research vessels. There is typically a temperature sensor near the intake (known as the hull temperature) to provide measurements that are as close as possible to the ambient water temperature. The flow from the supply is typically directed through continuously logged sensors such as a thermosalinograph and a fluorometer. Water samples are often collected from the underway supply that may also be referred to as the non-toxic supply. Ideally the data contributor has specified the depth in the ship's hull at which the pump is mounted. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/31/
Cruise: NBP1302
NBP1302
Community Standard Description
International Council for the Exploration of the Sea
RVIB Nathaniel B. Palmer
vessel
NBP1302
Dennis Hansell
University of Miami Rosenstiel School of Marine and Atmospheric Science
http://dmoserv3.whoi.edu/data_docs/TRACERS/NBP1302_data_report.pdf
Report describing NBP1302
Community Standard Description
International Council for the Exploration of the Sea
RVIB Nathaniel B. Palmer
vessel