EditorialForest ecosystems cover approximately 30 % of the terrestrial area of the Earth, and are expected to play crucial roles in regulating our environments including biodiversity and atmospheric CO 2 concentration. As the structure and functions of the forest ecosystems are consists of multiple interactions of organisms, soil chemistry and meteorological conditions, which are quite variable in time and space, challenges to understand their processes and resulting dynamics of the functions have been made by various scientific disciplines/techniques such as ecology (including ecophysiology and biogeochemistry), hydrology, micrometeorology, simulation models and remote sensing.This research has focused particularly on carbon, which is one of the ''common'' elements of ecological processes involved in ecosystems such as photosynthesis, respiration, and biomass growth, and of the interaction between the atmosphere and ecosystems, as the carbon cycle regulates biological aspects of ecosystems and hence determines the exchange of CO 2 between the atmosphere and ecosystems. In recent decades, the carbon cycle and budget have been the central theme of environmental sciences by reflecting the ongoing climate change partly due to the rise in atmospheric CO 2 . In order to achieve deeper understanding of the dynamics of the structure and functions of forest ecosystems over time and space, it is essential to conduct investigations on (1) the detailed ecological processes in the carbon cycle, (2) their interactions with the climate, (3) integrated analysis of ecological and meteorological process, and (4) observations of such structure and functions over time and space.This special issue involves such multidisciplinary and long-term challenges at the ''Takayama site'' (Fig. 1) during the last 20 years since 1993, which is located on a mountainous region in central Japan. The site mainly consist of a cool-temperate deciduous broadleaf forest (TKY) and an evergreen coniferous forest (TKC), which are part of the AsiaFlux (http://www.asiaflux.net/) and Japan Long-Term Ecological Research (JaLTER, http://www.jalter.org/) networks. The history of the Takayama site (Fig. 2) was initiated by the long-term observation of CO 2 exchange between the atmosphere and the deciduous forest, and ecological research for the carbon cycle processes in the forest, by numbers of scientists and students from several research institutes and universities Yamamoto and Koizumi 2005;