Abstract The goal of this paper is to introduce a statistical concept to derive ecological classifications of terrestrial and marine environments. Such ecological regionalisations reflect spatial combinations of biotic and abiotic characteristics and therefore may serve for environmental planning and monitoring issues. Referring to two case studies the paper presents how to calculate and map ecological defined regions from geodata by use of decision tree models and GIS-techniques. The first study deals with marine environments, exemplified by benthic habitats in the North Sea. The second study is on an ecological land classification of Europe which was computed using surface data on potential natural vegetation, elevation, soil texture and several climatic elements. Both the marine and the terrestrial ecoregions maps were combined with exposure data provided by environmental monitoring activities. The ecological land classification of Europe was intersected with measurement data on the metal loads in mosses taken from the German part of UN ECE moss surveys. In this way, the temporal development of the metal bioaccumulation within ecoregions since 1990 was assessed. The benthic habitat map was used to regionalise the temporal trend of the temperature conditions near the sea floor for the months of July and January from 1995 to 2000 by analysing these measurements according to the spatial categories of the habitat map. In the future, both ecological regionalisations should be used as a spatial framework for the analysis of up-to-date meteorological and phenological data in order to disclose climate change induced impacts.