Findings about CO
2 dynamics in the Earth’s ancestral atmosphere have suggested much higher concentrations in past eras. Along this line, cyanobacteria are an early evolved photosynthetic group that is suggested to have experienced both high and low CO
2 availability since their Precambrian origin, and therefore, it is reasonable to assume that these microbes have the potential to cope with these scenarios by rapidly adjusting to various carbon dioxide levels. Thus, in this work, we performed a short-term (72-h) investigation of the physiological parameters (cell growth, photosynthesis and saxitoxin production) of toxic and nontoxic strains of the cyanobacterium
Raphidiopsis raciborskii challenged by an extremely high
pCO
2 (40,000 ppm). Additionally, the transcriptomic profile (regarding the carbon concentrating mechanism and photosynthesis) of selected toxic and nontoxic strains is also presented. We found that short-term exposure to extremely elevated CO
2 concentrations did not affect
R. raciborskii physiology regardless of toxin production. However, transcripts related to bicarbonate transporters and the RuBisCO enzyme indicated the upregulation of CCM and downregulation of the Calvin cycle, respectively. According to our findings, at least at the initial growth phase,
R. raciborskii was able to cope with a very high CO
2 level, which shed light on the understanding that this species might have the potential to cope with carbon dioxide in water above the predicted levels.
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