http://lod.bco-dmo.org/id/dataset/716955
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
2017-10-13
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Prochlorococcus in situ cell cycle phases fractions from RV Cape Hatteras cruises CH0409 and CH0510 in the Western Sargasso Sea in 2009 and 2010.
2017-10-12
publication
2017-10-12
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2019-03-19
publication
https://doi.org/10.1575/1912/bco-dmo.716955.1
Dr Brian Binder
University of Georgia
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: Binder, B. (2017) Prochlorococcus in situ cell cycle phases fractions from RV Cape Hatteras cruises CH0409 and CH0510 in the Western Sargasso Sea in 2009 and 2010. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2017-10-12 [if applicable, indicate subset used]. doi:10.1575/1912/bco-dmo.716955.1 [access date]
Prochlorococcus in situ Cell Cycle Phases Fractions. Dataset Description: <p>Prochlorococcus in situ Cell Cycle Phases Fractions.</p> Methods and Sampling: <p>Samples were taken using a rosette of Niskin bottles, fixed with freshly titrated paraformaldehyde (pH 7.4–8.1, 0.1% final concentration), held in the dark for 10 min, frozen in liquid nitrogen, and stored in a -80 deg C freezer (CH0409 samples) or in liquid nitrogen (CH0510 samples) until analysis. Preserved samples were analyzed by dual beam flow cytometry on a modified Coulter-EPICS 753 flow cytometer (Binder et al. 1996). Samples were chosen in random order, defrosted in a 30°C water bath (just long enough to melt, ~5 min), and stained with the DNA-specific stain Hoechst 33342 (0.5 ug mL-1 final concentration) (Invitrogen, Carlsbad, California) for a minimum of 20 min in the dark. Prior to analysis, polystyrene fluorescent beads (Flow Check® 1.0 um (YG) and 0.494 um (BB); Polysicences Inc., Washington, PA, USA), were added to each sample, and used to normalize cellular light scatter, red (chlorophyll-derived) fluorescence, and Hoechst fluorescence.</p>
<p>Samples were run at an infusion rate of 10 uL min-1 for 10 to 50 min, depending on cell abundance within the sample. A minimum of 10,000 Prochlorococcus cells were analyzed, except for samples in which low Prochlorococcus concentrations made this impractical.&nbsp;&nbsp;</p>
<p>DNA frequency distributions for Prochlorococcus cells were obtained from Hoechst-derived blue fluorescence. These frequency distributions were deconvoluted into their component cell cycle stages (G1, S, G2) using Modfit software (Verity Software House, Topsham, ME, USA), and assuming a simple model comprised of two Gaussian populations (G1 and G2) and a broadened rectangle (S).&nbsp;</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-0751672 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=0751672
completed
Dr Brian Binder
University of Georgia
706-742-2399
Department of Marine Sciences Marine Science Building University of Georgia
Athens
GA
30602-3636
USA
bbinder@uga.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Cruise
Wx
Depth
date_UTC
time_UTC
Lon
Lat
G1_pc
S_pc
G2_pc
G1G2_CV
G2G1Ratio
ISO_DateTime_UTC
Coulter-EPICS 753 flow cytometer
Niskin bottle
theme
None, User defined
Cruise identfier
experiment id
depth
date
time of day
longitude
latitude
cell_concentration
No BCO-DMO term
fluorescence
ISO_DateTime_UTC
featureType
BCO-DMO Standard Parameters
Flow Cytometer
Niskin bottle
instrument
BCO-DMO Standard Instruments
CH0409
CH0510
service
Deployment Activity
Beaufort, North Carolina
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.
Top-Down Regulation of Picophytoplankton in the Sargasso Sea: Application of a Reciprocal Transplant / Dilution Approach
https://osprey.bco-dmo.org/project/709339
Top-Down Regulation of Picophytoplankton in the Sargasso Sea: Application of a Reciprocal Transplant / Dilution Approach
<p>The intellectual merit of the research is to extend our understanding of the biology and ecology of marine picophytoplankton, a group of microbes that are responsible for a large proportion of the total photosynthetic carbon fixation that occurs in the world's oceans. The importance of picophytoplankton as the dominant primary producers in open-ocean ecosystems is well-established. However, the factors that regulate the distribution and abundance of these populations remain poorly understood. The investigators will explore the dynamics of top-down (grazer-mediated) regulation of picophytoplankton populations in a specific context: the maintenance of summertime subsurface maxima in the pico-cyanobacterium Prochlorococcus (but not Synechococcus) in the Sargasso Sea. This phenomenon represents a relatively simple and predictable model system within which to test hypotheses about the regulation of oceanic picophytoplankton in general.<br />
Recent results suggest that despite their abundance, Prochlorococcus in the subsurface maxi-mum are growing (and being grazed) rather slowly, as compared to the smaller population at the surface. In order to understand the factors responsible for this apparent paradox, this project will use a combination of field and laboratory studies to characterize and compare the interactions between Prochorococcus and its protozoan grazers at these two contrasting depths, and in relation to Synechococcus, which forms no such sub-surface maximum.<br />
The broader impacts include training for graduate and undergraduate students. In addition, given the significance of picophytoplankton as primary producers at the base of oceanic microbial food webs, the results of this project should inform efforts to describe and model the broader oceanic ecosystem, and ultimately to understand its role in the global carbon cycle.</p>
Picophytoplankton_Regulation
largerWorkCitation
project
eng; USA
oceans
Beaufort, North Carolina
-72.8769
-71.8634
30.1464
30.9082
2009-05-26
2010-05-31
Western Sargasso Sea (vicinity of 30 N 72 W)
0
BCO-DMO catalogue of parameters from Prochlorococcus in situ cell cycle phases fractions from RV Cape Hatteras cruises CH0409 and CH0510 in the Western Sargasso Sea in 2009 and 2010.
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/716965.rdf
Name: Cruise
Units: unitless
Description: <p>R/V Cape Hatteras Cruise Designation</p>
http://lod.bco-dmo.org/id/dataset-parameter/716966.rdf
Name: Wx
Units: unitless
Description: <p>Experiment Designation</p>
http://lod.bco-dmo.org/id/dataset-parameter/716967.rdf
Name: Depth
Units: meters
Description: <p>Sample Depth</p>
http://lod.bco-dmo.org/id/dataset-parameter/716968.rdf
Name: date_UTC
Units: unitless
Description: <p>Sampling date; yyyy/mm/dd</p>
http://lod.bco-dmo.org/id/dataset-parameter/716969.rdf
Name: time_UTC
Units: unitless
Description: <p>Sampling time; hh:mm</p>
http://lod.bco-dmo.org/id/dataset-parameter/716970.rdf
Name: Lon
Units: decimal degrees
Description: <p>Longitude; N is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/716971.rdf
Name: Lat
Units: decimal degrees
Description: <p>Latitude; E is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/716972.rdf
Name: G1_pc
Units: percent
Description: <p>Fraction of Prochlorococcus in G1 phase</p>
http://lod.bco-dmo.org/id/dataset-parameter/716973.rdf
Name: S_pc
Units: percent
Description: <p>Fraction of Prochlorococcus in S phase</p>
http://lod.bco-dmo.org/id/dataset-parameter/716974.rdf
Name: G2_pc
Units: percent
Description: <p>Fraction of Prochlorococcus in G2 phase</p>
http://lod.bco-dmo.org/id/dataset-parameter/716975.rdf
Name: G1G2_CV
Units: percent
Description: <p>Coefficient of Variation for Cell Cycle subpopulations</p>
http://lod.bco-dmo.org/id/dataset-parameter/716976.rdf
Name: G2G1Ratio
Units: unitless
Description: <p>G2:G1 peak fluorescence ratio</p>
http://lod.bco-dmo.org/id/dataset-parameter/716977.rdf
Name: ISO_DateTime_UTC
Units: unitless
Description: <p>DateTime UTC; ISO formatted</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
15570
https://darchive.mblwhoilibrary.org/bitstream/1912/23861/1/dataset-716955_prochlorococcus-situ-cell-cycle-phases__v1.tsv
download
https://doi.org/10.1575/1912/bco-dmo.716955.1
download
onLine
dataset
<p>Samples were taken using a rosette of Niskin bottles, fixed with freshly titrated paraformaldehyde (pH 7.4–8.1, 0.1% final concentration), held in the dark for 10 min, frozen in liquid nitrogen, and stored in a -80 deg C freezer (CH0409 samples) or in liquid nitrogen (CH0510 samples) until analysis. Preserved samples were analyzed by dual beam flow cytometry on a modified Coulter-EPICS 753 flow cytometer (Binder et al. 1996). Samples were chosen in random order, defrosted in a 30°C water bath (just long enough to melt, ~5 min), and stained with the DNA-specific stain Hoechst 33342 (0.5 ug mL-1 final concentration) (Invitrogen, Carlsbad, California) for a minimum of 20 min in the dark. Prior to analysis, polystyrene fluorescent beads (Flow Check® 1.0 um (YG) and 0.494 um (BB); Polysicences Inc., Washington, PA, USA), were added to each sample, and used to normalize cellular light scatter, red (chlorophyll-derived) fluorescence, and Hoechst fluorescence.</p>
<p>Samples were run at an infusion rate of 10 uL min-1 for 10 to 50 min, depending on cell abundance within the sample. A minimum of 10,000 Prochlorococcus cells were analyzed, except for samples in which low Prochlorococcus concentrations made this impractical.&nbsp;&nbsp;</p>
<p>DNA frequency distributions for Prochlorococcus cells were obtained from Hoechst-derived blue fluorescence. These frequency distributions were deconvoluted into their component cell cycle stages (G1, S, G2) using Modfit software (Verity Software House, Topsham, ME, USA), and assuming a simple model comprised of two Gaussian populations (G1 and G2) and a broadened rectangle (S).&nbsp;</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Data Processing Notes:</strong></p>
<p>- separated Time.UTC column into two columns - date_UTC and time_UTC<br />
- reformatted date to yyyy/mm/dd and time to 24hr time<br />
- replaced #N/A to nd<br />
- added ISO_DateTime_UTC column</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
Coulter-EPICS 753 flow cytometer
Coulter-EPICS 753 flow cytometer
PI Supplied Instrument Name: Coulter-EPICS 753 flow cytometer PI Supplied Instrument Description:Used to analyze preserved samples Instrument Name: Flow Cytometer Instrument Short Name:Flow Cytometer Instrument Description: Flow cytometers (FC or FCM) are automated instruments that quantitate properties of single cells, one cell at a time. They can measure cell size, cell granularity, the amounts of cell components such as total DNA, newly synthesized DNA, gene expression as the amount messenger RNA for a particular gene, amounts of specific surface receptors, amounts of intracellular proteins, or transient signalling events in living cells.
(from: http://www.bio.umass.edu/micro/immunology/facs542/facswhat.htm) Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB37/
Niskin bottle
Niskin bottle
PI Supplied Instrument Name: Niskin bottle PI Supplied Instrument Description:Used to take samples in rosette 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: CH0409
CH0409
R/V Cape Hatteras
Community Standard Description
International Council for the Exploration of the Sea
R/V Cape Hatteras
vessel
CH0409
https://ezid.cdlib.org/id/doi:10.7284/902620
Report describing CH0409
Cruise: CH0510
CH0510
R/V Cape Hatteras
Community Standard Description
International Council for the Exploration of the Sea
R/V Cape Hatteras
vessel
CH0510
https://ezid.cdlib.org/id/doi:10.7284/901958
Report describing CH0510
R/V Cape Hatteras
Community Standard Description
International Council for the Exploration of the Sea
R/V Cape Hatteras
vessel