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The Joint Action Programme of the ICPDR outlined the specific steps that were agreed to be taken over the period 2001-2005 to achieve the environmental objectives outlined in the Danube River Protection Convention including many large-scale measures to reduce water pollution, to promote nature conservation, to restore ecosystems, and to safeguard the long-term sustainable management of the environment.

The floodplains and wetlands of the Danube basin are uniquely valuable ecosystems in global terms, although few areas are still in their natural or near-natural state.

Since the 16th century, people have been changing the natural course of the rivers in the Danube River Basin, mainly for flood defence, hydropower generation and navigation. All these changes affect the ecological quality of the rivers. Changes in the depth or width of a river typically reduce flow rates, interrupting natural sediment transportation as well as the migration routes of animals.