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Terrestrial ecosystems have received considerable attention as a significant sink for organic carbon at regional to global scales. Previous studies were focused on assessment and quantification of carbon sinks for one ecotype, and few have worked on the interconnection of terrestrial sinks. In this paper, we synthesized the data from China's second national soil survey and direct measurements from 54 lakes. Meanwhile, we investigated the controlling factors of carbon accumulation dynamics in soils and lakes. Results showed varied spatial distribution of soil and lake organic carbon in different regions, and three storage modes were found. The storage mode of watershed collection was observed in the region of the Qinghai-Tibetan Plateau, while the northeast China and Yunnan-Guizhou Plateau revealed another storage mode of autochthonous deposition, and the mode of human activities affection was represented by the East Plain and Mongolia-Xinjiang Plateau. The spatial difference throughout China was regulated by various climate patterns, geological conditions and anthropogenic interference. Our results provide insights into carbon storage modes in various regions, and also inform strategies for enhancing global carbon sequestration and future mitigation policies towards global climate change. • Climate, topography and human activity regulate regional soil and lake carbon storage. • Three carbon storage modes based on relationship between soil and lake carbon. • Suggestions to enhance carbon sequestration through soil and lake management. [ABSTRACT FROM AUTHOR]