http://lod.bco-dmo.org/id/dataset/841583
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
2021-02-24
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Element quotas of individual plankton cells collected during IRNBRU (MV1405) and June 2015 Line P cruises
2021-02-24
publication
2021-02-24
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2021-05-18
publication
https://doi.org/10.26008/1912/bco-dmo.841583.1
Benjamin Twining
Bigelow Laboratory for Ocean Sciences
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: Twining, B. (2021) Element quotas of individual plankton cells collected during IRNBRU (MV1405) and June 2015 Line P cruises. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2021-02-24 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.841583.1 [access date]
Cellular trace elements from IRNBRU and Line P cruises Dataset Description: Methods and Sampling: <p><em>R/V Melville</em>&nbsp;1405 took place in the North Pacific Ocean along the California coast from 32°S to 43°N and extending from -117°E to -127°E. The Line P cruise on CCGS John P. Tully was in the North Pacific Ocean off the coast British Columbia from Vancouver (48°N, 123°W) to Ocean Station Papa (50°N, 145°W).</p>
<p>Samples were collected with trace-metal clean bottles or trace-metal clean pump. A small aliquot of unfiltered seawater was collected following protocols described in Twining et al. (2015). Cellular metals were analyzed with the 2-ID-E microprobe beamline at the Advanced Photon Source, Argonne National Laboratory. Incident beam energy was 10 keV to enable the excitation of K<sub>α</sub> fluorescence for elements ranging in atomic number from Si (14) to Zn (30). Element quantification was performed by averaging the spectra from pixels representing the cells of interest. Spectra were also extracted from a background area close to each cell. The spectra were then fit with MAPS, a custom fitting software package (Vogt, 2003).&nbsp; Concentrations were calculated based on conversion factors obtained by running the thin-film standards NBS 1832, NBS 1833, and custom Si, P, and Fe standards made by Micromatter XRF. Cell volume was calculated based on measurements taken from bright field images of the cells and using the equations of Hillebrand et al. (1999). Cellular C was then calculated from the volumes using the equations described in Menden-Deuer and Lessard (2000).</p>
<p>Complete methodology is published in Twining et al. (2020).</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1334632 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1334632
completed
Benjamin Twining
Bigelow Laboratory for Ocean Sciences
207-315-2567
60 Bigelow Drive PO Box 380
East Boothbay
ME
04544-0380
USA
btwining@bigelow.org
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Cruise
Station
Lat_N
Lon_E
Depth
CellType
Run
MDA
Volume
cellC
cellSi
cellMn
cellFe
cellCo
cellNi
cellZn
trace-metal clean pump
trace-metal clean bottles
2-ID-E X-ray microprobe beamline
theme
None, User defined
Cruise identfier
station
latitude
longitude
depth
sample description
sample identification
biovolume
Elemental carbon (C)
Silicon
Manganese
Iron
Cobalt
Nickel
Zinc
featureType
BCO-DMO Standard Parameters
Pump
Trace Metal Bottle
X-ray fluorescence analyzer
instrument
BCO-DMO Standard Instruments
MV1405
2015-009
service
Deployment Activity
California Coastline
North Pacific Ocean
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.
Collaborative Research: Investigating the Ecological Importance of Iron Storage in Diatoms
https://osprey.bco-dmo.org/project/527114
Collaborative Research: Investigating the Ecological Importance of Iron Storage in Diatoms
<p><em>NSF Award Abstract:</em><br />
Diatoms are responsible for a significant fraction of primary production in the ocean. They are associated with enhanced carbon export and usually dominate the response of phytoplankton to additions of the micronutrient iron in high-nutrient, low-chlorophyll (HNLC) regions. Diatoms, particularly those isolated from the open ocean, appear to have a significant capacity to store iron for later use, and in some groups of diatoms this ability is enabled by the iron storage protein ferritin. Such luxury uptake of iron has long been observed in laboratory cultures and hypothesized to provide diatoms with an ecological benefit in the low-iron waters that cover 40% of the global ocean. However iron storage has been difficult to observe in natural systems due to the methodological challenges of working with mixed plankton assemblages, and a physiological understanding of the impacts of iron on ocean diatoms is lacking. This project combines state-of-the-art high-throughput transcriptomic sequencing and single-cell element analysis with novel laboratory and field incubation experiments to quantify iron storage abilities of cultured and natural diatoms that either contain or lack ferritin and determine the ecological impacts of this process. The overall objective of this project is to examine the ecological importance of iron storage as a selective mechanism controlling the distributions of diatoms along iron gradients in marine ecosystems. The proposed research includes three specific objectives:</p>
<p>A. Determine if there is a consistent physiological difference in the ability of pennate versus centric diatoms to store iron.</p>
<p>B. Examine whether iron storage capacities across diverse diatom taxa consistently provide a mechanistic explanation for continued growth in the absence of iron.</p>
<p>C. Determine whether enhanced iron storage provides diatoms with a competitive within natural phytoplankton assemblages in both coastal and oceanic regions.</p>
<p>Transcriptomic sequencing on a variety of ecologically important pennate and centric diatoms will be used to survey for the presence of ferritin-like genes in order to establish biogeographical and/or phylogenetic patterns of occurrence of diatom ferritin. Laboratory culture experiments will be used to quantify the iron storage abilities of these diatoms, as well as the number of cell divisions that can be supported by the stored iron, providing valuable physiological data to inform the understanding of plankton ecology in iron-limited coastal and HNLC systems. The laboratory experiments will be complemented by measurements of ferritin expression and iron storage in coastal and ocean diatoms sampled across gradients of iron availability on two cruises-of-opportunity to the northeast Pacific Ocean.</p>
<p>The NCBI bioproject page can be found <a href="https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJNA320398" target="_blank">here</a>.</p>
Diatom Iron Storage
largerWorkCitation
project
eng; USA
oceans
California Coastline; North Pacific Ocean
-145
-123.66
38.66
50
2021-02-24
North Pacific, California coast and subarctic gyre
0
BCO-DMO catalogue of parameters from Element quotas of individual plankton cells collected during IRNBRU (MV1405) and June 2015 Line P cruises
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/841604.rdf
Name: Cruise
Units: unitless
Description: <p>indicates either IrnBru and Line P cruise</p>
http://lod.bco-dmo.org/id/dataset-parameter/841605.rdf
Name: Station
Units: unitless
Description: <p>station number</p>
http://lod.bco-dmo.org/id/dataset-parameter/841606.rdf
Name: Lat_N
Units: degrees North
Description: <p>station latitude</p>
http://lod.bco-dmo.org/id/dataset-parameter/841607.rdf
Name: Lon_E
Units: degrees East
Description: <p>station longitude</p>
http://lod.bco-dmo.org/id/dataset-parameter/841608.rdf
Name: Depth
Units: meters (m)
Description: <p>depth of sample collection</p>
http://lod.bco-dmo.org/id/dataset-parameter/841609.rdf
Name: CellType
Units: unitless
Description: <p>classification of diatom type</p>
http://lod.bco-dmo.org/id/dataset-parameter/841610.rdf
Name: Run
Units: unitless
Description: <p>analysis year and run</p>
http://lod.bco-dmo.org/id/dataset-parameter/841611.rdf
Name: MDA
Units: unitless
Description: <p>unique identifier for each cell</p>
http://lod.bco-dmo.org/id/dataset-parameter/841612.rdf
Name: Volume
Units: cubic micrometers (um^3)
Description: <p>biovolume of cell</p>
http://lod.bco-dmo.org/id/dataset-parameter/841613.rdf
Name: cellC
Units: moles per cell (mol/cell)
Description: <p>cellular carbon</p>
http://lod.bco-dmo.org/id/dataset-parameter/841614.rdf
Name: cellSi
Units: moles per cell (mol/cell)
Description: <p>cellular silicon</p>
http://lod.bco-dmo.org/id/dataset-parameter/841615.rdf
Name: cellMn
Units: moles per cell (mol/cell)
Description: <p>cellular manganese</p>
http://lod.bco-dmo.org/id/dataset-parameter/841616.rdf
Name: cellFe
Units: moles per cell (mol/cell)
Description: <p>cellular iron</p>
http://lod.bco-dmo.org/id/dataset-parameter/841617.rdf
Name: cellCo
Units: moles per cell (mol/cell)
Description: <p>cellular cobalt</p>
http://lod.bco-dmo.org/id/dataset-parameter/841618.rdf
Name: cellNi
Units: moles per cell (mol/cell)
Description: <p>cellular nickel</p>
http://lod.bco-dmo.org/id/dataset-parameter/841619.rdf
Name: cellZn
Units: moles per cell (mol/cell)
Description: <p>cellular zinc</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
5224
https://darchive.mblwhoilibrary.org/bitstream/1912/27124/1/dataset-841583_cellular-trace-elements-irnbru-and-line-p__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.841583.1
download
onLine
dataset
<p><em>R/V Melville</em>&nbsp;1405 took place in the North Pacific Ocean along the California coast from 32°S to 43°N and extending from -117°E to -127°E. The Line P cruise on CCGS John P. Tully was in the North Pacific Ocean off the coast British Columbia from Vancouver (48°N, 123°W) to Ocean Station Papa (50°N, 145°W).</p>
<p>Samples were collected with trace-metal clean bottles or trace-metal clean pump. A small aliquot of unfiltered seawater was collected following protocols described in Twining et al. (2015). Cellular metals were analyzed with the 2-ID-E microprobe beamline at the Advanced Photon Source, Argonne National Laboratory. Incident beam energy was 10 keV to enable the excitation of K<sub>α</sub> fluorescence for elements ranging in atomic number from Si (14) to Zn (30). Element quantification was performed by averaging the spectra from pixels representing the cells of interest. Spectra were also extracted from a background area close to each cell. The spectra were then fit with MAPS, a custom fitting software package (Vogt, 2003).&nbsp; Concentrations were calculated based on conversion factors obtained by running the thin-film standards NBS 1832, NBS 1833, and custom Si, P, and Fe standards made by Micromatter XRF. Cell volume was calculated based on measurements taken from bright field images of the cells and using the equations of Hillebrand et al. (1999). Cellular C was then calculated from the volumes using the equations described in Menden-Deuer and Lessard (2000).</p>
<p>Complete methodology is published in Twining et al. (2020).</p>
Specified by the Principal Investigator(s)
<p><strong>Data Processing:</strong><br />
SXRF data were excluded if the relative standard deviation of the element peak fit by the model was greater than 20%, indicating poor precision of the model fit.</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
trace-metal clean pump
trace-metal clean pump
PI Supplied Instrument Name: trace-metal clean pump Instrument Name: Pump Instrument Short Name: Instrument Description: A pump is a device that moves fluids (liquids or gases), or sometimes slurries, by mechanical action. Pumps can be classified into three major groups according to the method they use to move the fluid: direct lift, displacement, and gravity pumps
trace-metal clean bottles
trace-metal clean bottles
PI Supplied Instrument Name: trace-metal clean bottles Instrument Name: Trace Metal Bottle Instrument Short Name:TM Bottle Instrument Description: Trace metal (TM) clean rosette bottle used for collecting trace metal clean seawater samples. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/30/
2-ID-E X-ray microprobe beamline
2-ID-E X-ray microprobe beamline
PI Supplied Instrument Name: 2-ID-E X-ray microprobe beamline PI Supplied Instrument Description:The 2-ID-E X-ray microprobe beamline at the Advanced Photon Source, Argonne National Laboratory, was used for cellular element analysis. Instrument Name: X-ray fluorescence analyzer Instrument Short Name:XRF analyzer Instrument Description: Instruments that identify and quantify the elemental constituents of a sample from the spectrum of electromagnetic radiation emitted by the atoms in the sample when excited by X-ray radiation.
Cruise: MV1405
MV1405
R/V Melville
Community Standard Description
International Council for the Exploration of the Sea
R/V Melville
vessel
MV1405
Kenneth W. Bruland
University of California-Santa Cruz
Cruise: 2015-009
2015-009
Community Standard Description
International Council for the Exploration of the Sea
CCGS John P. Tully
vessel
2015-009
Marie Robert
Fisheries and Oceans Canada, Pacific Region
https://datadocs.bco-dmo.org/docs/302/twining/Diatom_Iron_Storage/data_docs/2015-009_cruise_report.pdf
Report describing 2015-009
R/V Melville
Community Standard Description
International Council for the Exploration of the Sea
R/V Melville
vessel
Community Standard Description
International Council for the Exploration of the Sea
CCGS John P. Tully
vessel