In arid areas, lakes play important roles in sustaining the local ecology, mitigating flood hazard, and restricting economic activity of society. In this study, we used multi-temporal satellite data to study annual variations in 16 natural lakes with individual surface areas over 10 km 2 , categorized into six regions based on their geographical and climatic information and on their relations with climate variables. Results indicated that annual variations in lake surface areas are different across these six regions. The surface area of Kanas Lake has not obviously changed due to its typical U-shape cross section; the areas of Ulungur Lake and Jili Lake increased sharply in the 1980s and then slightly decreased; the areas of Sayram Lake, Ebinur Lake, and Bosten Lake increased and then decreased, with peaks detected in the early 2000s; the areas of Barkol Lake and Toale Culler decreased, while those of the lakes located in the Kunlun Mountains steadily increased. Lake areas also show various relationships with climate variables. There is no obvious relationship between area and climate variables in Kanas Lake due to the specific lake morphology; the areas of most lakes showed positive correlations with annual precipitation (except Sayram Lake). A negative correlation between area and temperature were detected in Ulungur Lake, Jili Lake, Barkol Lake, and Toale Culler, while positive correlations were suggested in Bosten Lake and the lakes in the Kunlun Mountains (e.g., Saligil Kollakan Lake, Aksai Chin Lake, and Urukkule Lake).