A widely-used eddy covariance gap-filling method creates systematic bias in carbon balance estimates.

Climate change mitigation requires, besides reductions in greenhouse gas emissions, actions to increase carbon sinks in terrestrial ecosystems. A key measurement method for quantifying such sinks and calibrating models is the eddy covariance technique, but it requires imputation, or gap-filling, of missing data for determination of annual carbon balances of ecosystems. Previous comparisons of gap-filling methods have concluded that commonly used methods, such as marginal distribution sampling (MDS), do not have a significant impact on the carbon balance estimate.