This report describes the approach adopted for the update of the World Input-Output Database (WIOD) environmental accounts for the period 2000-2016. In constructing the WIOD-based energy and emission accounts we follow closely the methodology developed by Genty et al. (2012), with some adjustments due to changes in system boundaries, which are further detailed. This report illustrates the data adjustment steps required to reconcile energy and economic data which stem, for example, from different accounting principles. Special care has been taken to address problems related to time series breaks in order to achieve a smooth transition between the years 2009 and 2010 at the intersection between the original and new WIOD releases. Results for EU countries are compared with other data sources such as the previous WIOD time series, the Physical Energy Flows Accounts (PEFA) and the National Accounts Matrices with Environmental Extensions (NAMEA) showing a satisfactory goodness of fit, with some exceptions. A final comparison of the inter-temporal structure across periods is proposed in order to identify possible reasons of changes in the patterns of gross energy use.