http://lod.bco-dmo.org/id/dataset/4066
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
2013-10-28
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Results from experiments examining the cell diameter of Crocosphaera watsonii (WH0003) in response to light irradiance; conducted in the Hutchins Laboratory, USC
2013-10-28
publication
2013-10-28
revision
BCO-DMO Linked Data URI
2013-10-28
creation
http://lod.bco-dmo.org/id/dataset/4066
David A. Hutchins
University of Southern California
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: Hutchins, D. A. (2013) Results from experiments examining the cell diameter of Crocosphaera watsonii (WH0003) in response to light irradiance; conducted in the Hutchins Laboratory, USC. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 28 Oct 2013) Version Date 2013-10-28 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/4066 [access date]
Cell diameter of Crocosphaera watsonii (WH0003) in response to light irradiance. Dataset Description: <p>Results of a laboratory experiment examining growth of the WH0003 isolate of<em> Crocosphaera watsonii</em> in response to different light intensities. WH0003 was isolated near Sta. ALOHA (A Long Term Oligotrophic Habitat Assessment) in the North Pacific Ocean near Hawaii (22 deg 45' N, 158 deg 00' W).</p>
<p>Detailed methods and results are described in the following publication (see Figure 4, panel a):<br />
Garcia, N.S., Fu, F.X., and Hutchins, D.A.&nbsp; (2013). Colimitation of the unicellular photosynthetic diazotroph Crocosphaera watsonii by phosphorus, light, and carbon dioxide. Limnology and Oceanography 58(4): 1501-1512. DOI: <a href="http://dx.doi.org/10.4319/lo.2013.58.4.1501" target="_blank">10.4319/lo.2013.58.4.1501</a></p> Methods and Sampling: <p><strong>Culturing and experimental conditions</strong><br />
Experimental cultures were grown with a semi-continuous culturing method at 28 degrees C in autoclave-sterilized artificial seawater medium with nutrients added in concentrations equivalent to the recipe for the Aquil medium (except for NO3-), as in Garcia et al. (2011) and originally described by Morel et al. (1979).</p>
<p><strong>Light experiment and cellular growth rates</strong><br />
Triplicate cultures were grown in 800 mL polystyrene flasks under 5 irradiances (18, 40, 100, 180, 300 umol quanta per m^2 per second) and diluted every 2-3 days to 10-20 x 103 cells per mL. Cells were counted microscopically in each replicate culture with a hemocytometer at the end of each dilution period, and steady state growth rates were calculated from an increase in culture cell number per unit volume between 2-3 dilution periods (4-6 days) after cultures were acclimated to treatment conditions for 7-10 generations. To calculate growth rates, the investigators used the equation N<sub>T</sub>=N<sub>0</sub>e<sup>µT</sup>, where N<sub>0</sub> and N<sub>T</sub> are the initial and final culture cell densities, respectively and T is the amount of time in days between culture cell number estimates. With this method, the dilution rate is determined by the growth rate of the algae as determined by the experimental treatments, rather than by controlling the growth rate through imposing a dilution rate, as one does for continuous cultures.</p>
<p>Cell diameters of ~12 cells from treatment replicates were measured with an ocular micrometer. In the light experiment, cells in one replicate from each light were measured treatment twice, once in the middle of the light period and once at the end of the light period on the same day.</p>
<p>Light was supplied on a 12:12 light:dark cycle with cool white fluorescent bulbs. The investigators terminally sampled each replicate culture 24 hours after the last dilution for N2-fixation rates and CO2-fixation rates.</p>
<p><strong>References:</strong><br />
Garcia, N. S., F.-X. Fu, , C. L. Breene, P. W. Bernhardt, M. R. Mulholland, J. A. Sohm, and D. A. Hutchins. 2011. Interactive effects of irradiance and CO2 on CO2- and N2 fixation in the diazotroph Trichodesmium erythraeum (Cyanobacteria). J. Phycol. 47: 1292-1303. DOI:&nbsp;<a href="http://dx.doi.org/10.1111/j.1529-8817.2011.01078.x" target="_blank">10.1111/j.1529-8817.2011.01078.x</a></p>
<p>Morel, F. M. M., J. G. Rueter, D. M. Anderson, and Guillard, R. R. L. 1979. Aquil: Chemically defined phytoplankton culture medium for trace metal studies. J. Phycol. 15:135-141. DOI:&nbsp;<a href="http://dx.doi.org/10.1111/j.1529-8817.1979.tb02976.x" target="_blank">10.1111/j.1529-8817.1979.tb02976.x</a></p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-0722337 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=0722337
completed
David A. Hutchins
University of Southern California
213-740-5616
Department of Biological Sciences 3616 Trousdale Parkway, AHF 20
Los Angeles
CA
90089
USA
dahutch@usc.edu
pointOfContact
asNeeded
Dataset Version: 28 Oct 2013
Unknown
time_period
light
cell_diameter
cell_diameter_se
Hemocytometer
Microscope-Optical
theme
None, User defined
No BCO-DMO term
irradiance
standard error
featureType
BCO-DMO Standard Parameters
Hemocytometer
Microscope - Optical
instrument
BCO-DMO Standard Instruments
lab_Hutchins_07-12_diazotrophs
service
Deployment Activity
Hutchins Laboratory, University of Southern California
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.
CO2 control of oceanic nitrogen fixation and carbon flow through diazotrophs
https://osprey.bco-dmo.org/project/2172
CO2 control of oceanic nitrogen fixation and carbon flow through diazotrophs
<p><i>From NSF award abstract:</i></p>
<p>The importance of marine N2 fixation to present ocean productivity and global nutrient and carbon biogeochemistry is now universally recognized. Marine N2 fixation rates and oceanic N inventories are also thought to have varied over geological time due to climate variability and change. However, almost nothing is known about the responses of dominant N2 fixers in the ocean such as Trichodesmium and unicellular N2 fixing cyanobacteria to past, present and future global atmospheric CO2 regimes. Our preliminary data demonstrate that N2 and CO2 fixation rates, growth rates, and elemental ratios of Atlantic and Pacific Trichodesmium isolates are controlled by the ambient CO2 concentration at which they are grown. At projected year 2100 pCO2 (750 ppm), N2 fixation rates of both strains increased 35-100%, with simultaneous increases in C fixation rates and cellular N:P and C:P ratios. Surprisingly, these increases in N2 and C fixation due to elevated CO2 were of similar relative magnitude regardless of the growth temperature or P availability. Thus, the influence of CO2 appears to be independent of other common growth-limiting factors. Equally important, Trichodesmium growth and N2 fixation were completely halted at low pCO2 levels (150 ppm), suggesting that diazotrophy by this genus may have been marginal at best at last glacial maximum pCO2 levels of ~190 ppm. Genetic evidence indicates that Trichodesmium diazotrophy is subject to CO2 control because this cyanobacterium lacks high-affinity dissolved inorganic carbon transport capabilities. These findings may force a re-evaluation of the hypothesized role of past marine N2 fixation in glacial/interglacial climate changes, as well as consideration of the potential for increased ocean diazotrophy and altered nutrient and carbon cycling in the future high-CO2 ocean.</p>
<p>We propose an interdisciplinary project to examine the relationship between ocean N2 fixing cyanobacteria and changing pCO2. A combined field and laboratory approach will incorporate in situ measurements with experimental manipulations using natural and cultured populations of Trichodesmium and unicellular N2 fixers over range of pCO2 spanning glacial era to future concentrations (150-1500 ppm). We will also examine how effects of pCO2 on N2 and C fixation and elemental stoichiometry are moderated by the availability of other potentially growth-limiting variables such as Fe, P, temperature, and light. We plan to obtain a detailed picture of the full range of responses of important oceanic diazotrophs to changing pCO2, including growth rates, N2 and CO2 fixation, cellular elemental ratios, fixed N release, photosynthetic physiology, and expression of key genes involved in carbon and nitrogen acquisition at both the transcript and protein level.</p>
<p>This research has the potential to evolutionize our understanding of controls on N2 fixation in the ocean. Many of our current ideas about the interactions between oceanic N2 fixation, atmospheric CO2, nutrient biogeochemistry, ocean productivity, and global climate change may need revision to take into account previously unrecognized feedback mechanisms between atmospheric composition and diazotrophs. Our findings could thus have major implications for human society, and its increasing dependence on ocean resources in an uncertain future. This project will take the first vital steps towards understanding how a biogeochemically-critical process, the fixation of N2 in the ocean, may respond to our rapidly changing world during the century to come.</p>
Diaz N2-Fix in High CO2
largerWorkCitation
project
eng; USA
oceans
Hutchins Laboratory, University of Southern California
2013-10-28
Laboratory
0
BCO-DMO catalogue of parameters from Results from experiments examining the cell diameter of Crocosphaera watsonii (WH0003) in response to light irradiance; conducted in the Hutchins Laboratory, USC
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/36878.rdf
Name: time_period
Units: text
Description: <p>In the light experiment, cells in one replicate from each light treatment were measured twice:<br /> once in the middle of the light (mid_light_period) period and once at the end of the light period (end_light_period) on the same day.</p>
http://lod.bco-dmo.org/id/dataset-parameter/36879.rdf
Name: light
Units: micromoles quanta per square meter per second (umol quanta m-2 s-1)
Description: <p>Light intensity.<br /> (For more about light measurement see: <a href="http://www.marine.csiro.au/microalgae/methods/Light%20Physical%20Units.htm" target="_blank">Australian National Algae Culture Collection</a> <br /> and <a href="http://5e.plantphys.net/article.php?ch=9&id=131" target="_blank">Plant Physiology Online</a>.)</p>
http://lod.bco-dmo.org/id/dataset-parameter/36880.rdf
Name: cell_diameter
Units: micrometers (um)
Description: <p>Cell diameter measured in micrometers (um).</p>
http://lod.bco-dmo.org/id/dataset-parameter/36881.rdf
Name: cell_diameter_se
Units: micrometers (um)
Description: <p>Standard error of cell_diameter.</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
494
https://datadocs.bco-dmo.org/file/1VVMoKNHEp3rGp/C_watsonii_WH0003_cell_diam.csv
C_watsonii_WH0003_cell_diam.csv
Primary data file for dataset ID 4066
download
https://osprey.bco-dmo.org/dataset/4066/data/download
download
onLine
dataset
<p><strong>Culturing and experimental conditions</strong><br />
Experimental cultures were grown with a semi-continuous culturing method at 28 degrees C in autoclave-sterilized artificial seawater medium with nutrients added in concentrations equivalent to the recipe for the Aquil medium (except for NO3-), as in Garcia et al. (2011) and originally described by Morel et al. (1979).</p>
<p><strong>Light experiment and cellular growth rates</strong><br />
Triplicate cultures were grown in 800 mL polystyrene flasks under 5 irradiances (18, 40, 100, 180, 300 umol quanta per m^2 per second) and diluted every 2-3 days to 10-20 x 103 cells per mL. Cells were counted microscopically in each replicate culture with a hemocytometer at the end of each dilution period, and steady state growth rates were calculated from an increase in culture cell number per unit volume between 2-3 dilution periods (4-6 days) after cultures were acclimated to treatment conditions for 7-10 generations. To calculate growth rates, the investigators used the equation N<sub>T</sub>=N<sub>0</sub>e<sup>µT</sup>, where N<sub>0</sub> and N<sub>T</sub> are the initial and final culture cell densities, respectively and T is the amount of time in days between culture cell number estimates. With this method, the dilution rate is determined by the growth rate of the algae as determined by the experimental treatments, rather than by controlling the growth rate through imposing a dilution rate, as one does for continuous cultures.</p>
<p>Cell diameters of ~12 cells from treatment replicates were measured with an ocular micrometer. In the light experiment, cells in one replicate from each light were measured treatment twice, once in the middle of the light period and once at the end of the light period on the same day.</p>
<p>Light was supplied on a 12:12 light:dark cycle with cool white fluorescent bulbs. The investigators terminally sampled each replicate culture 24 hours after the last dilution for N2-fixation rates and CO2-fixation rates.</p>
<p><strong>References:</strong><br />
Garcia, N. S., F.-X. Fu, , C. L. Breene, P. W. Bernhardt, M. R. Mulholland, J. A. Sohm, and D. A. Hutchins. 2011. Interactive effects of irradiance and CO2 on CO2- and N2 fixation in the diazotroph Trichodesmium erythraeum (Cyanobacteria). J. Phycol. 47: 1292-1303. DOI:&nbsp;<a href="http://dx.doi.org/10.1111/j.1529-8817.2011.01078.x" target="_blank">10.1111/j.1529-8817.2011.01078.x</a></p>
<p>Morel, F. M. M., J. G. Rueter, D. M. Anderson, and Guillard, R. R. L. 1979. Aquil: Chemically defined phytoplankton culture medium for trace metal studies. J. Phycol. 15:135-141. DOI:&nbsp;<a href="http://dx.doi.org/10.1111/j.1529-8817.1979.tb02976.x" target="_blank">10.1111/j.1529-8817.1979.tb02976.x</a></p>
Specified by the Principal Investigator(s)
<p>BCO-DMO re-arranged data formatted as separate tables into one dataset. Parameter names were changed to conform with BCO-DMO conventions.</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
Hemocytometer
Hemocytometer
PI Supplied Instrument Name: Hemocytometer PI Supplied Instrument Description:Cells were counted microscopically in each replicate culture with a hemocytometer at the end of each dilution period. Instrument Name: Hemocytometer Instrument Short Name:Hemocytometer Instrument Description: A hemocytometer is a small glass chamber, resembling a thick microscope slide, used for determining the number of cells per unit volume of a suspension. Originally used for performing blood cell counts, a hemocytometer can be used to count a variety of cell types in the laboratory. Also spelled as "haemocytometer". Description from:
http://hlsweb.dmu.ac.uk/ahs/elearning/RITA/Haem1/Haem1.html.
Microscope-Optical
Microscope-Optical
PI Supplied Instrument Name: Microscope-Optical PI Supplied Instrument Description:Cell diameters were measured with an ocular micrometer. Instrument Name: Microscope - Optical Instrument Short Name: Instrument Description: Instruments that generate enlarged images of samples using the phenomena of reflection and absorption of visible light. Includes conventional and inverted instruments. Also called a "light microscope". Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB05/
Deployment: lab_Hutchins_07-12_diazotrophs
lab_Hutchins_07-12_diazotrophs
USC
laboratory
lab_Hutchins_07-12_diazotrophs
David A. Hutchins
University of Southern California
USC
laboratory