This dataset is based on a National Report on the progress and implementation of the Habitats Directive in Portugal, concerning the 2007-2012 period. It originates from a project performed periodically (every 6 years) that aims to permit an adequate assessment of the progress, via the Natura 2000 Network, towards the goals of the Habitats Directive. This national reports describes conservation status for flora and fauna species in three biogeographic regions (Atlantic, Macaronesian and Mediterranean) and two marine regions (Atlantic and Macaronesian). It contains occurrence data for fauna and flora belonging to 3 kingdoms, 7 phyla, 16 classes, 52 orders, 104 families, 188 genera and 271 species.