A comprehensive analysis of CO2 exchanges in agro-ecosystems based on a generic soil-crop model-derived methodology

•The approach computes daily CO2 fluxes (GPP, RECO, NEE) from soil-crop model outputs.•The 16-year ICOS crop rotation of BE-LON was used to set-up the approach.•Goodness of fit indicators proved the method to be reliable.•Environmental drivers of CO2 fluxes inter-seasonal variability were identified.•Its genericity makes it a valuable tool to investigate crop rotations CO2 dynamics.