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This dataset contains atmospheric carbon dioxide, oxygen and atmospheric potential oxygen data from the Cap San Lorenzo container ship. A Li-6252 CO2 analyser and Oxzilla II O2 analyser was used for measurement. The UK participation of Southern OceaN optimal Approach To Assess the carbon state, variability and climatic drivers (SONATA) was funded by the Natural Environment Research Council (NERC, grant: NE/P021360/1).