Various surface water bodies, such as rivers, lakes and reservoirs, provide water and essential services to human society. However, the long-term spatiotemporal dynamics of different types of surface water bodies and their possible driving factors over large areas remain very limited. Here, we used unprecedented surface water data layers derived from all available Landsat images and further developed two databases on China’s lakes and reservoirs larger than 1 km2 to document and understand the characteristics of changes in different water body types during 2000 to 2019 in China. Our results show that China is dominated by permanent water bodies. The areas of permanent and seasonal water bodies in China increased by 16,631.02 km2 (16.72%) and 16,994.95 km2 (25.14%), respectively, between 2000 and 2019, with permanent and seasonal water bodies exhibiting divergent spatial variations. Lakes and artificial reservoirs larger than 1 km2, which collectively represent a significant proportion of the permanent water bodies in China, displayed net increases of 6884.52 km2 (10.71%) and 4075.13 km2 (36.10%), respectively, from 2000 to 2019; these increases accounted for 41.40% and 24.50%, respectively, of the total permanent water body increment. The expanding lakes were mainly distributed on the Tibetan Plateau, whereas the rapidly growing reservoirs were mainly located on the Northeast Plain and Eastern Plain. Statistical analyses indicated that artificial reservoirs were an important factor controlling both permanent and seasonal water body changes in most of provinces. Climate factors, such as precipitation and temperature, were the main influencing factors affecting the changes in different water bodies in the sparsely populated Tibetan Plateau.