<div><p>All data from this study are based on growth rate measurements from laboratory cultures of cyanobacteria acclimated to either 400 ppm or 800 ppm pCO2. Full details are included in Knight & Morris (2020). Brief summaries of the two experiments and their analyses are reported below.</p>
<p><strong>1. Survey of <em>Prochlorococcus</em> and <em>Synechococcus</em> culture responses to year 2100 pCO2.</strong> We tested the growth rate response of several different strains of each genus, representing the most globally abundant ecotype varieties, to 800 ppm pCO2, similar to what is expected to exist by the end of the century. Cultures were acclimated for 3 cycles of semi-continuous culture at the target pCO2, and then growth curves were collected by flow cytometry for 3 further transfer cycles. Cultures were diluted into fresh media while still in exponential growth phase. Both exponential growth rates (slope of cell density vs. time during logarithmic growth) and Malthusian growth rates (based only on starting and ending cell densities, and the elapsed time of the culture) were calculated. Growth rate responses were expressed as the ratio of growth rate at 800 ppm over 400 ppm, and were compared to values reported previously in the literature for other marine cyanobacteria.</p>
<p><strong>2. Head-to-head <em>Prochlorococcus</em> vs. <em>Synechococcus</em> experiments.</strong> We chose one strain of each genus from Experiment 1 to compete in co-culture with each other. Strains were chosen to have opposite growth rate responses, such that <em>Prochlorococcus </em>was predicted to be outcompeted at 800 ppm pCO2. Growth of each competitor was measured by flow cytometry, where the two genera have easily distinguishable fluorescence signatures. Relative fitness of <em>Prochlorococcus</em> was expressed as the difference in growth rate between <em>Prochlorococcus</em> and <em>Synechococcus</em>. Linear models were used to analyze the effects of cell density and relative frequency on competition outcomes.</p>
<p>Media preparation: All experiments were conducted in media with an artificial seawater base. Carbonate parameters were carefully measured using titration to determine alkalinity and either potentiometric or colorimetric assays to determine pH. pCO2 was manipulated by addition of calibrated doses of HCl or NaOH, along with NaHCO3 to preserve alkalinity if necessary, in hermetically sealed test tubes with approximately no headspace. Culture growth was assessed every two days by removing a 100 uL aliquot for flow cytometric analysis.</p></div>
Syn-Pro Co-cultures
<div><p>The data and code in this package allow one to re-run all the analyses performed in the paper "Co-culture with Synechococcus facilitates Prochlorococcus growth under ocean acidification conditions", published in Environmental Microbiology (doi:<a href="https://dx.doi.org/10.1111/1462-2920.15277" target="_blank">10.1111/1462-2920.15277</a>). Each file is provided separately and all files are packaged into the file Syn-Pro_Co-cultures.zip. </p>
<p>To re-run the analyses, place all the files in one directory, set that directory to the working directory in R, and copy-and-paste the entire contents of the file KnightDataAnalysis.txt into the R window and hit "enter". You may need to install the plyr, lme4, and emmeans packages beforehand. A description of each file is in the ReadMe.txt file. </p></div>
Syn-Pro Co-cultures
<div><p><strong>Data Processing:</strong>All data were analyzed in R v 3.6.1. Linear models were used for most analyses, with post-hoc comparisons conducted using the emmeans package Full code necessary to re-run our analyses is contained in the file KnightDataAnalysis.txt included with this package.</p></div>
839925
Syn-Pro Co-cultures
2021-02-05T14:32:20-05:00
2021-02-05T14:32:20-05:00
2021-02-09T12:52:02-05:00
urn:bcodmo:dataset:839925
Data on laboratory cultures and statistical analysis code associated with the paper "Co-culture with Synechococcus facilitates the growth of Prochlorococcus under ocean acidification conditions" published in Environmental Microbiology
Data on laboratory cultures and statistical analysis code pertaining to the paper "Co-culture with Synechococcus facilitates the growth of Prochlorococcus under ocean acidification conditions" published in Environmental Microbiology (doi:10.1111/1462-2920.15277). The data and code in this package allow one to re-run all the analyses performed in the paper.
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Morris, J. J. (2021) Data on laboratory cultures and statistical analysis code associated with the paper "Co-culture with Synechococcus facilitates the growth of Prochlorococcus under ocean acidification conditions" published in Environmental Microbiology. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2021-02-05 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.839925.1 [access date]
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2021-02-05
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