The main objective of GHG-LAKE joint research programme is to increase mobility and exchange of researchers between EU countries, Russia and US to obtain better understanding of energy and greenhouse gases (methane and carbon dioxide) budgets in lake ecosystems at high-latitude, which are potentially most prone to on-going and future climate changes. Factors controlling the carbon cycles are investigated by means of intensive field measurements and process based modelling. This program focuses on four research aspects: 1) gas exchange processes; 2) carbon cycle, including greenhouse gases (GHG) flux database development for lacustrine ecosystems; 3) energy and greenhouse gas flux measurements, including research and knowledge transfer of key methodological aspects for comprehensive measurement sites; 4) process based biogeochemical modelling for GHGs production and transport in water bodies, as well as state of art large eddy simulation modelling for resolving non-homogeneous and non-stationary atmospheric boundary layer flow over heterogeneous surfaces (e.g. small lake surrounded by forest).GHG-LAKE programme builds a basis for long-term collaboration between the leading EU, Russian and US research organizations in the area of limnology, GHGs monitoring and modelling and climate change research in order to achieve new scientific results and breakthroughs. The proposed programme is interdisciplinary and the expected results will touch in particular the environmental sciences, limnology, biogeochemistry and micrometeorology research communities. GHG-LAKE will exploit complementary expertise of the participant organizations in order to create synergies among participants and to establish long-lasting partnership. As multi- and cross-disciplinary studies essential in climate change research are lacking in Russia, this programme will essentially also work towards an integrated approach for future joint international projects.