http://lod.bco-dmo.org/id/dataset/3964
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Results of laboratory experiment examining growth and N2-fixation of Crocosphaera watsonii under differing pCO2 levels; conducted in the Hutchins Laboratory, USC
2013-06-12
publication
2013-06-12
revision
BCO-DMO Linked Data URI
2013-06-12
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http://lod.bco-dmo.org/id/dataset/3964
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.
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Cite this dataset as: Hutchins, D. A. (2013) Results of laboratory experiment examining growth and N2-fixation of Crocosphaera watsonii under differing pCO2 levels; conducted in the Hutchins Laboratory, USC. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 12 June 2013) Version Date 2013-06-12 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/3964 [access date]
Growth and N2-fixation of Crocosphaera watsonii under differing pCO2 levels. Dataset Description: <p>Results of laboratory experiments examining growth and N2-fixation rate of two isolates of <em>Crocosphaera watsonii</em>, WH0401 and WH0402, in response to three levels of CO2 (190, air, and 750) at a light intensity of 155 umol quanta m-2 s-1. Isolates of <em>C. watsonii</em>, a unicellular marine N2-fixing cyanobacterium, were obtained from the western tropical Atlantic Ocean and cultured in the laboratory.</p>
<p>Detailed methods and results are described in the following publication (see Figure 2):<br />
Garcia, N.S., Fu, F.X., Breene, C.L, Yu, E., Bernhardt, P.W., Mulholland, M.R., and Hutchins, D.A.&nbsp; (2013).&nbsp; Combined effects of CO2 and irradiance on the unicellular N2-fixing cyanobacterium Crocosphaera watsonii: a comparison of two isolates from the Western Tropical Atlantic Ocean. European Journal of Phycology 48: 128-139. DOI: <a href="http://dx.doi.org/10.1080/09670262.2013.773383" target="_blank">10.1080/09670262.2013.773383</a></p>
<p>Related Datasets:<br />
<a href="https://www.bco-dmo.org/dataset/3962" target="_blank">C watsonii light experiment</a><br />
<a href="https://www.bco-dmo.org/dataset/3965" target="_blank">C watsonii CO2-light experiment </a></p> Methods and Sampling: <p><strong>Culturing and experimental conditions</strong><br />
Stock cultures of the two Atlantic <em>C. watsonii </em>isolates used in this study were provided courtesy of Dr. Eric Webb. Both isolates were collected in March 2002, WH0401 from 6º 58.78' N, 49º 19.70' W and WH0402 from 11º 42.12S', 32º 00.64'W. Triplicate cultures were grown using a semi-continuous culturing technique (Garcia et al., 2011) at 28 degrees C in an artificial seawater medium (Chen et al., 1996). Nutrients were added to autoclaved seawater at the concentrations listed in the AQUIL recipe (Morel et al., 1979), except for nitrate, which was omitted. The growth rates of cultures were measured over 2–3 day intervals and were used to determine the dilution rate. Culture cell density was kept low (cells ml–1 = 50–500 × 103 for experiments with WH0401 and 5.0–30 × 103 for WH0402) to prevent light limitation of photosynthesis and deviation from the expected pH values for respective pCO2 culture treatments. Light was supplied with cool-white fluorescent lamps on a 12:12 h light:dark cycle and measured with a LI-250A light meter (LiCor Biosciences, light sensor serial# SPQA 4020). Because of large differences in cell size between WH0401 and WH0402, WH0401 was cultured at higher cell densities to maintain relatively equivalent levels of total culture biomass (0.1–2.5 mM particulate C for cultures of WH0401; 0.1–1.3 mM particulate C for WH0402). For CO2 experiments, media and cultures were bubbled with filtered air from the room (0.2 µm filtered, present-day pCO2 concentration of ~385 ppm) or premixed air prepared by Gilmore Liquid Air Company with certified values of 190 ppm pCO2 (last glacial maximum levels: Petit et al., 1999) and 750 or 761 ppm pCO2 (within the range predicted for the year 2100: Alley et al., 2007) for the entire term of the experiment. Cells were considered fully acclimated to treatment conditions after cultures had remained at steady-state growth for seven generations or more (unless stated otherwise). Fast growing cultures (i.e. high light cultures) were acclimated for more than ten generations while slow growing cultures (i.e. low light and low pCO2 cultures) were acclimated over two months but for fewer generations. Cultures were sampled over the period between 24 and 48 h after the preceding dilution to measure growth rates, gross and net 15N2-fixation rates, CO2-fixation rates, particulate elemental composition, and carbonate system measurements (for CO2 experiments).</p>
<p><strong>CO2 experiments</strong><br />
To investigate variability in the effects of CO2 on growth and N2-fixation rates between strains of <em>C. watsonii</em>, the investigators conducted experiments with cultures of WH0401 and WH0402. They measured growth and gross and net N2-fixation rates (see N2-fixation rates) in response to three levels of CO2 (190, air, and 750 ppm) at a light intensity of 155 µmol quanta m–2 s–1. This light intensity was chosen so that growth rates in these cultures would not be limited by light.</p>
<p><strong>Growth rate and cell density estimates</strong><br />
Growth rate was determined as an increase in culture cell density over time with 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, T is the time in days between culture cell density estimates, and µ is the specific growth rate. Culture cell density was determined using a haemocytometer and an Olympus BX51 microscope. Cell diameter was measured using an ocular micrometer calibrated with the same microscope. Growth rates were fitted to a Monod linear hyperbolic function of light (Monod, 1949) using Sigma Plot 10 software program. The hyperbola was fit to the data without including the origin to yield the highest r<sup>2</sup> value.</p>
<p><strong>Carbonate system measurements</strong><br />
Culture pH was measured intermittently during the CO2 experiments with a pH meter using the NBS seawater scale (Orion 5 star Thermo Scientific, Beverly, MA, USA). Samples for total CO2 (TCO2) measurements were preserved in unfiltered water collected from cultures (5–70 ml; stored at 4°C) with a 5% HgCl2 solution (0.5% final concentration) until later analysis with a carbon coulomb meter (CM 140, UIC, Joliet, IL, USA). TCO2 was measured by acidifying a 5 ml sample with phosphoric acid (1–2% final concentration) and quantifying the CO2 trapped in an acid sparging column as described in Garcia et al. (2011). TCO2 analyses were not available in the preliminary CO2 experiments. pCO2 was calculated with the CO2sys program (Lewis &amp; Wallace, 1998) using the NBS pH scale and K1 and K2 constants from Mehrbach et al. (1973), refit by Dickson &amp; Millero (1987).</p>
<p><strong>N2 fixation</strong><br />
The acetylene reduction assay described by Capone et al. (1993) was used to estimate the gross N2-fixation rate. Rate measurements were initiated at the beginning of the 12-h dark period, when C. watsonii is known to fix N2 (Mohr et al., 2010a; Saito et al., 2011). For the CO2 experiments, the acetylene assay was initiated during the seventh hour of the 12-h dark period and continued for 4 h. For this assay, two 50 ml (light and CO2–light experiments) or 60 ml (CO2 experiments) culture samples were collected from each replicate and incubated in 80-ml polycarbonate bottles at 28 degrees C. Four millilitres of acetylene were injected into the headspace ~1 h after the beginning of the dark period and samples were withdrawn from the headspace every 2–3 h to measure acetylene reduction. Gross N2-fixation rates were calculated in the same way as described in Garcia et al. (2011), using a Bunsen coefficient for ethylene of 0.082 (Breitbarth et al., 2004) and an ethylene production : N2-fixation ratio of 3:1.</p>
<p>Net N2-fixation rates were measured using the 15N2 isotope tracer method (Mulholland &amp; Bernhardt, 2005; Mulholland et al., 2004). Samples were prepared the same way as described in Garcia et al. (2011). Briefly, 169 ml of each experimental replicate was inoculated with 169 µl of 99% doubly labelled 15N2 gas and incubated at 28 degrees C in complete darkness for 12 h during the dark period. The incubation was then terminated by filtering the entire volume onto precombusted (450 degrees C, 4 h) GF/F filters for the analysis of particulate 15N, total particulate N, and total particulate C. Filters were dried at 80–90 degrees C, pelleted, and combusted in a quartz column with chromium oxide and silver wool at 1000 degrees C. For this analysis, ammonium sulphate and sucrose were used as standards. At the time these experiments were conducted, the investigators were not aware of the criticisms of the 15N2 uptake method that have been discussed by Mohr et al. (2010b). Thus, for another independent estimate of net N2 fixation, the investigators calculated a particulate N (PN) accumulation rate in cultures over time (deltaPN = PNfinal - PNinitial) by using estimates of particulate N. Particulate N was measured in subsamples of experimental replicates that were incubated with 15N2 at the end of the dark period and used as the end-period PN measurement (PNfinal). Because only one sample of PN was collected, the investigators back-calculated an estimate of PNinitial based on their measurements of cellular growth rate using the equation: growth rate (d–1) = [ln(PNfinal)–ln(PNinitial)]/(t2–t1), where t1 is the initial time and t2 is the final time. Based on their measurements of growth rates, the investigators assumed that PN per cell was in a daily steady state. The gross N2-fixation rate:PN-accumulation rate ratio (hereafter the gross:PN accumulation ratio) was then calculated and compared with the ratio of gross N2-fixation rate:net 15N2-fixation rate ratio (gross:net), which is a proxy for cellular N retention (Mulholland et al., 2004; Mulholland, 2007).</p>
<p><strong>References:</strong><br />
ALLEY, R.B., BERNTSEN, T., BINDOFF, N.L., CHEN, Z., CHIDTHAISONG, A., FRIEDLINGSTEIN, P., GREGORY, J.M., HEGERL, G.C., HEIMANN, M., HEWITSON, B., HOSKINS, B.J., JOOS, F., JOUZEL, J., KATTSOV, V., LOHMANN, U., MANNING, M., MATSUNO, T., MOLINA, M., NICHOLLS, N., OVERPECK, J., QIN, D., RAGA, G., RAMASWAMY, V., REN, J., RUSTICUCCI, M., SOLOMON, S., SOMERVILLE, R., STOCKER, T.F., STOTT, P.A., STOUFFER, R.J., WHETTON, P., WOOD, R.A. &amp; WRATT, D. (2007). Summary for policymakers. In Climate change 2007: The physical science basis. Contribution of Working Group I to the fourth assessment report of the Intergovernmental Panel on Climate Change (Solomon, S., Qin, D., Manning, M., Chen, Z., Marquis, M., Averyt, K.B., Tignor, M. &amp; Miller, H.L., editors), 1–18. Cambridge University Press, Cambridge and New York.</p>
<p>BREITBARTH, E., MILLS, M.M., FRIEDRICHS, G. &amp; LAROCHE, J. (2004). The Bunsen gas solubility coefficient of ethylene as a function of temperature and salinity and its importance for nitrogen fixation assays. Limnology and Oceanography: Methods, 2: 282–288. DOI: <a href="http://dx.doi.org/10.4319/lom.2004.2.282" target="_blank">10.4319/lom.2004.2.282</a></p>
<p>CHEN, Y.B., ZEHR, J.P. &amp; MELLON, M. (1996). Growth and nitrogen fixation of the diazotrophic filamentous nonheterocystous cyanobacterium Trichodesmium sp. IMS101 in defined media: Evidence for a circadian rhythm. Journal of Phycology, 32: 916-923. DOI: <a href="http://dx.doi.org/10.1111/j.0022-3646.1996.00916.x" target="_blank">10.1111/j.0022-3646.1996.00916.x</a></p>
<p>DICKSON, A.G. &amp; MILLERO, F.J. (1987). A comparison of the equilibrium constants for the dissociation of carbonic acid in seawater media. Deep-Sea Research, 34: 1733–1743.</p>
<p>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>LEWIS, E. &amp; WALLACE, D.W.R. (1998). Program developed for CO2 System calculations. ORNL/CDIAC-105. Carbon Dioxide Information Analysis Center, Oak Ridge National Laboratory, U.S. Department of Energy, Oak Ridge, Tennessee. Available at: <a href="http://cdiac.ornl.gov/oceans/co2rprt.html" target="_blank">http://cdiac.ornl.gov/oceans/co2rprt.html</a></p>
<p>MEHRBACH, Y., CULBERSON, C., HAWLEY, J. &amp; PYTKOVICS, R. (1973). Measurement of the apparent dissociation constants of carbonic acid in seawater at atmospheric pressure. Limnology and Oceanography, 18: 897–907.</p>
<p>MONOD, J. (1949). The growth of bacterial cultures. Annual Review of Microbiology, 3: 371–394.</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.</p>
<p>MULHOLLAND, M.R. (2007). The fate of nitrogen fixed by diazotrophs in the ocean. Biogeosciences 4: 37–51. DOI: <a href="http://dx.doi.org/10.5194/bg-4-37-2007" target="_blank">10.5194/bg-4-37-2007</a></p>
<p>MULHOLLAND, M.R. &amp; BERNHARDT, P.W. (2005). The effect of growth rate, phosphorus concentration and temperature on N2-fixation, carbon fixation, and nitrogen release in continuous cultures of Trichodesmium IMS101. Limnology and Oceanography, 50: 839–849. DOI: <a href="http://dx.doi.org/10.4319/lo.2005.50.3.0839" target="_blank">10.4319/lo.2005.50.3.0839</a></p>
<p>MULHOLLAND, M.R., BRONK, D.A. &amp; CAPONE, D.G. (2004). N2 fixation and regeneration of NH4+ and dissolved organic N by Trichodesmium IMS101. Aquatic Microbial Ecology, 37: 85–94. DOI: <a href="http://dx.doi.org/10.3354/ame037085" target="_blank">10.3354/ame037085</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
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Dataset Version: 12 June 2013
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gross_to_net_N2_fixation
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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
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oceans
Hutchins Laboratory, University of Southern California
2013-06-12
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0
BCO-DMO catalogue of parameters from Results of laboratory experiment examining growth and N2-fixation of Crocosphaera watsonii under differing pCO2 levels; 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.
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http://lod.bco-dmo.org/id/dataset-parameter/35186.rdf
Name: isolate
Units: text
Description: <p>Name of Crocosphaera watsonii isolate.</p>
http://lod.bco-dmo.org/id/dataset-parameter/35187.rdf
Name: pCO2
Units: ppm
Description: <p>pCO2 level of the experiment (190, air, or 750 ppm).</p>
http://lod.bco-dmo.org/id/dataset-parameter/35188.rdf
Name: gross_to_net_N2_fixation
Units: ratio
Description: <p>Ratio of gross to net N2 fixation.</p>
http://lod.bco-dmo.org/id/dataset-parameter/35189.rdf
Name: gross_to_net_N2_fixation_sd
Units: ratio
Description: <p>Standard deviation of the ratio of gross to net N2 fixation.</p>
http://lod.bco-dmo.org/id/dataset-parameter/35190.rdf
Name: cellular_growth_rate
Units: per day
Description: <p>Cellular growth rate per day.</p>
http://lod.bco-dmo.org/id/dataset-parameter/35191.rdf
Name: cellular_growth_rate_sd
Units: per day
Description: <p>Standard deviation of cellular growth rate per day.</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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https://datadocs.bco-dmo.org/file/g77yqmrfAJp5Ap/C_watsonii_CO2_expt.csv
C_watsonii_CO2_expt.csv
Primary data file for dataset ID 3964
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<p><strong>Culturing and experimental conditions</strong><br />
Stock cultures of the two Atlantic <em>C. watsonii </em>isolates used in this study were provided courtesy of Dr. Eric Webb. Both isolates were collected in March 2002, WH0401 from 6º 58.78' N, 49º 19.70' W and WH0402 from 11º 42.12S', 32º 00.64'W. Triplicate cultures were grown using a semi-continuous culturing technique (Garcia et al., 2011) at 28 degrees C in an artificial seawater medium (Chen et al., 1996). Nutrients were added to autoclaved seawater at the concentrations listed in the AQUIL recipe (Morel et al., 1979), except for nitrate, which was omitted. The growth rates of cultures were measured over 2–3 day intervals and were used to determine the dilution rate. Culture cell density was kept low (cells ml–1 = 50–500 × 103 for experiments with WH0401 and 5.0–30 × 103 for WH0402) to prevent light limitation of photosynthesis and deviation from the expected pH values for respective pCO2 culture treatments. Light was supplied with cool-white fluorescent lamps on a 12:12 h light:dark cycle and measured with a LI-250A light meter (LiCor Biosciences, light sensor serial# SPQA 4020). Because of large differences in cell size between WH0401 and WH0402, WH0401 was cultured at higher cell densities to maintain relatively equivalent levels of total culture biomass (0.1–2.5 mM particulate C for cultures of WH0401; 0.1–1.3 mM particulate C for WH0402). For CO2 experiments, media and cultures were bubbled with filtered air from the room (0.2 µm filtered, present-day pCO2 concentration of ~385 ppm) or premixed air prepared by Gilmore Liquid Air Company with certified values of 190 ppm pCO2 (last glacial maximum levels: Petit et al., 1999) and 750 or 761 ppm pCO2 (within the range predicted for the year 2100: Alley et al., 2007) for the entire term of the experiment. Cells were considered fully acclimated to treatment conditions after cultures had remained at steady-state growth for seven generations or more (unless stated otherwise). Fast growing cultures (i.e. high light cultures) were acclimated for more than ten generations while slow growing cultures (i.e. low light and low pCO2 cultures) were acclimated over two months but for fewer generations. Cultures were sampled over the period between 24 and 48 h after the preceding dilution to measure growth rates, gross and net 15N2-fixation rates, CO2-fixation rates, particulate elemental composition, and carbonate system measurements (for CO2 experiments).</p>
<p><strong>CO2 experiments</strong><br />
To investigate variability in the effects of CO2 on growth and N2-fixation rates between strains of <em>C. watsonii</em>, the investigators conducted experiments with cultures of WH0401 and WH0402. They measured growth and gross and net N2-fixation rates (see N2-fixation rates) in response to three levels of CO2 (190, air, and 750 ppm) at a light intensity of 155 µmol quanta m–2 s–1. This light intensity was chosen so that growth rates in these cultures would not be limited by light.</p>
<p><strong>Growth rate and cell density estimates</strong><br />
Growth rate was determined as an increase in culture cell density over time with 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, T is the time in days between culture cell density estimates, and µ is the specific growth rate. Culture cell density was determined using a haemocytometer and an Olympus BX51 microscope. Cell diameter was measured using an ocular micrometer calibrated with the same microscope. Growth rates were fitted to a Monod linear hyperbolic function of light (Monod, 1949) using Sigma Plot 10 software program. The hyperbola was fit to the data without including the origin to yield the highest r<sup>2</sup> value.</p>
<p><strong>Carbonate system measurements</strong><br />
Culture pH was measured intermittently during the CO2 experiments with a pH meter using the NBS seawater scale (Orion 5 star Thermo Scientific, Beverly, MA, USA). Samples for total CO2 (TCO2) measurements were preserved in unfiltered water collected from cultures (5–70 ml; stored at 4°C) with a 5% HgCl2 solution (0.5% final concentration) until later analysis with a carbon coulomb meter (CM 140, UIC, Joliet, IL, USA). TCO2 was measured by acidifying a 5 ml sample with phosphoric acid (1–2% final concentration) and quantifying the CO2 trapped in an acid sparging column as described in Garcia et al. (2011). TCO2 analyses were not available in the preliminary CO2 experiments. pCO2 was calculated with the CO2sys program (Lewis &amp; Wallace, 1998) using the NBS pH scale and K1 and K2 constants from Mehrbach et al. (1973), refit by Dickson &amp; Millero (1987).</p>
<p><strong>N2 fixation</strong><br />
The acetylene reduction assay described by Capone et al. (1993) was used to estimate the gross N2-fixation rate. Rate measurements were initiated at the beginning of the 12-h dark period, when C. watsonii is known to fix N2 (Mohr et al., 2010a; Saito et al., 2011). For the CO2 experiments, the acetylene assay was initiated during the seventh hour of the 12-h dark period and continued for 4 h. For this assay, two 50 ml (light and CO2–light experiments) or 60 ml (CO2 experiments) culture samples were collected from each replicate and incubated in 80-ml polycarbonate bottles at 28 degrees C. Four millilitres of acetylene were injected into the headspace ~1 h after the beginning of the dark period and samples were withdrawn from the headspace every 2–3 h to measure acetylene reduction. Gross N2-fixation rates were calculated in the same way as described in Garcia et al. (2011), using a Bunsen coefficient for ethylene of 0.082 (Breitbarth et al., 2004) and an ethylene production : N2-fixation ratio of 3:1.</p>
<p>Net N2-fixation rates were measured using the 15N2 isotope tracer method (Mulholland &amp; Bernhardt, 2005; Mulholland et al., 2004). Samples were prepared the same way as described in Garcia et al. (2011). Briefly, 169 ml of each experimental replicate was inoculated with 169 µl of 99% doubly labelled 15N2 gas and incubated at 28 degrees C in complete darkness for 12 h during the dark period. The incubation was then terminated by filtering the entire volume onto precombusted (450 degrees C, 4 h) GF/F filters for the analysis of particulate 15N, total particulate N, and total particulate C. Filters were dried at 80–90 degrees C, pelleted, and combusted in a quartz column with chromium oxide and silver wool at 1000 degrees C. For this analysis, ammonium sulphate and sucrose were used as standards. At the time these experiments were conducted, the investigators were not aware of the criticisms of the 15N2 uptake method that have been discussed by Mohr et al. (2010b). Thus, for another independent estimate of net N2 fixation, the investigators calculated a particulate N (PN) accumulation rate in cultures over time (deltaPN = PNfinal - PNinitial) by using estimates of particulate N. Particulate N was measured in subsamples of experimental replicates that were incubated with 15N2 at the end of the dark period and used as the end-period PN measurement (PNfinal). Because only one sample of PN was collected, the investigators back-calculated an estimate of PNinitial based on their measurements of cellular growth rate using the equation: growth rate (d–1) = [ln(PNfinal)–ln(PNinitial)]/(t2–t1), where t1 is the initial time and t2 is the final time. Based on their measurements of growth rates, the investigators assumed that PN per cell was in a daily steady state. The gross N2-fixation rate:PN-accumulation rate ratio (hereafter the gross:PN accumulation ratio) was then calculated and compared with the ratio of gross N2-fixation rate:net 15N2-fixation rate ratio (gross:net), which is a proxy for cellular N retention (Mulholland et al., 2004; Mulholland, 2007).</p>
<p><strong>References:</strong><br />
ALLEY, R.B., BERNTSEN, T., BINDOFF, N.L., CHEN, Z., CHIDTHAISONG, A., FRIEDLINGSTEIN, P., GREGORY, J.M., HEGERL, G.C., HEIMANN, M., HEWITSON, B., HOSKINS, B.J., JOOS, F., JOUZEL, J., KATTSOV, V., LOHMANN, U., MANNING, M., MATSUNO, T., MOLINA, M., NICHOLLS, N., OVERPECK, J., QIN, D., RAGA, G., RAMASWAMY, V., REN, J., RUSTICUCCI, M., SOLOMON, S., SOMERVILLE, R., STOCKER, T.F., STOTT, P.A., STOUFFER, R.J., WHETTON, P., WOOD, R.A. &amp; WRATT, D. (2007). Summary for policymakers. In Climate change 2007: The physical science basis. Contribution of Working Group I to the fourth assessment report of the Intergovernmental Panel on Climate Change (Solomon, S., Qin, D., Manning, M., Chen, Z., Marquis, M., Averyt, K.B., Tignor, M. &amp; Miller, H.L., editors), 1–18. Cambridge University Press, Cambridge and New York.</p>
<p>BREITBARTH, E., MILLS, M.M., FRIEDRICHS, G. &amp; LAROCHE, J. (2004). The Bunsen gas solubility coefficient of ethylene as a function of temperature and salinity and its importance for nitrogen fixation assays. Limnology and Oceanography: Methods, 2: 282–288. DOI: <a href="http://dx.doi.org/10.4319/lom.2004.2.282" target="_blank">10.4319/lom.2004.2.282</a></p>
<p>CHEN, Y.B., ZEHR, J.P. &amp; MELLON, M. (1996). Growth and nitrogen fixation of the diazotrophic filamentous nonheterocystous cyanobacterium Trichodesmium sp. IMS101 in defined media: Evidence for a circadian rhythm. Journal of Phycology, 32: 916-923. DOI: <a href="http://dx.doi.org/10.1111/j.0022-3646.1996.00916.x" target="_blank">10.1111/j.0022-3646.1996.00916.x</a></p>
<p>DICKSON, A.G. &amp; MILLERO, F.J. (1987). A comparison of the equilibrium constants for the dissociation of carbonic acid in seawater media. Deep-Sea Research, 34: 1733–1743.</p>
<p>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>LEWIS, E. &amp; WALLACE, D.W.R. (1998). Program developed for CO2 System calculations. ORNL/CDIAC-105. Carbon Dioxide Information Analysis Center, Oak Ridge National Laboratory, U.S. Department of Energy, Oak Ridge, Tennessee. Available at: <a href="http://cdiac.ornl.gov/oceans/co2rprt.html" target="_blank">http://cdiac.ornl.gov/oceans/co2rprt.html</a></p>
<p>MEHRBACH, Y., CULBERSON, C., HAWLEY, J. &amp; PYTKOVICS, R. (1973). Measurement of the apparent dissociation constants of carbonic acid in seawater at atmospheric pressure. Limnology and Oceanography, 18: 897–907.</p>
<p>MONOD, J. (1949). The growth of bacterial cultures. Annual Review of Microbiology, 3: 371–394.</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.</p>
<p>MULHOLLAND, M.R. (2007). The fate of nitrogen fixed by diazotrophs in the ocean. Biogeosciences 4: 37–51. DOI: <a href="http://dx.doi.org/10.5194/bg-4-37-2007" target="_blank">10.5194/bg-4-37-2007</a></p>
<p>MULHOLLAND, M.R. &amp; BERNHARDT, P.W. (2005). The effect of growth rate, phosphorus concentration and temperature on N2-fixation, carbon fixation, and nitrogen release in continuous cultures of Trichodesmium IMS101. Limnology and Oceanography, 50: 839–849. DOI: <a href="http://dx.doi.org/10.4319/lo.2005.50.3.0839" target="_blank">10.4319/lo.2005.50.3.0839</a></p>
<p>MULHOLLAND, M.R., BRONK, D.A. &amp; CAPONE, D.G. (2004). N2 fixation and regeneration of NH4+ and dissolved organic N by Trichodesmium IMS101. Aquatic Microbial Ecology, 37: 85–94. DOI: <a href="http://dx.doi.org/10.3354/ame037085" target="_blank">10.3354/ame037085</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)
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7.x-1.1
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pointOfContact
Benchtop pH Meter
Benchtop pH Meter
PI Supplied Instrument Name: Benchtop pH Meter PI Supplied Instrument Description:Culture pH was measured using an Orion 5 Star (Thermo Scientific). Instrument Name: Benchtop pH Meter Instrument Short Name:Benchtop pH Meter Instrument Description: An instrument consisting of an electronic voltmeter and pH-responsive electrode that gives a direct conversion of voltage differences to differences of pH at the measurement temperature. (McGraw-Hill Dictionary of Scientific and Technical Terms)
This instrument does not map to the NERC instrument vocabulary term for 'pH Sensor' which measures values in the water column. Benchtop models are typically employed for stationary lab applications.
CO2 Coulometer
CO2 Coulometer
PI Supplied Instrument Name: CO2 Coulometer PI Supplied Instrument Description:Total CO2 was analyzed with a carbon coulomb meter (CM140, UIC, Joliet, IL). CM140 Instrument Brochure. Instrument Name: CO2 Coulometer Instrument Short Name:CO2 coulometer Instrument Description: A CO2 coulometer semi-automatically controls the sample handling and extraction of CO2 from seawater samples. Samples are acidified and the CO2 gas is bubbled into a titration cell where CO2 is converted to hydroxyethylcarbonic acid which is then automatically titrated with a coulometrically-generated base to a colorimetric endpoint. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB12
Hemocytometer
Hemocytometer
PI Supplied Instrument Name: Hemocytometer PI Supplied Instrument Description:Culture cell density was determined using a haemocytometer and an Olympus BX51 microscope. 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.
Light Meter
Light Meter
PI Supplied Instrument Name: Light Meter PI Supplied Instrument Description:During culturing, light was measured with a LI-250A light meter (LI-COR Biosciences, light sensor serial # SPQA 4020). Instrument Name: Light Meter Instrument Short Name:Light Meter Instrument Description: Light meters are instruments that measure light intensity. Common units of measure for light intensity are umol/m2/s or uE/m2/s (micromoles per meter squared per second or microEinsteins per meter squared per second). (example: LI-COR 250A)
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