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Background: Schistosomiasis japonica is a parasitic disease that remains endemic in seven provinces in the People’s Republic of China (P.R. China). One of the most important measures in the process of schistosomiasis elimination in P.R. China is control of Oncomelania hupensis, the unique intermediate host snail of Schistosoma japonicum. Compared with plains/swamp and lake regions, the hilly/mountainous regions of schistosomiasis endemic areas are more complicated, which makes the snail survey difficult to conduct precisely and efficiently. There is a pressing call to identify the snail habitats of mountainous regions in an efficient and cost-effective manner. Methods: Twelve out of 56 administrative villages distributed with O. hupensis in Eryuan, Yunnan Province, were randomly selected to set up the ecological model. Thirty out of the rest of 78 villages (villages selected for building model were excluded from the villages for validation) in Eryuan and 30 out of 89 villages in Midu, Yunnan Province were selected via a chessboard method for model validation, respectively. Nine-year-average Normalized Difference Vegetation Index (NDVI) and Land Surface Temperature (LST) as well as Digital Elevation Model (DEM) covering Eryuan and Midu were extracted from MODIS and ASTER satellite images, respectively. Slope, elevation and the distance from every village to its nearest stream were derived from DEM. Suitable survival environment conditions for snails were defined by comparing historical snail presence data and remote sensing derived images. According to the suitable conditions for snails, environment factors, i.e. NDVI, LST, elevation, slope and the distance from every village to its nearest stream, were integrated into an ecological niche model to predict O. hupensis potential habitats in Eryuan and Midu. The evaluation of the model was assessed by comparing the model prediction and field investigation. Then, the consistency rate of model validation was calculated in Eryuan and Midu Counties, respectively. Results: The final ecological niche model for potential O. hupensis habitats prediction comprised the following environmental factors, namely: NDVI (≥ 0.446), LST (≥ 22.70°C), elevation (≤ 2,300 m), slope (≤ 11°) and the distance to nearest stream (≤ 1,000 m). The potential O. hupensis habitats in Eryuan distributed in the Lancang River basin and O. hupensis in Midu shows a trend of clustering in the north and spotty distribution in the south. The consistency rates of the ecological niche model in Eryuan and Midu were 76.67% and 83.33%, respectively. Conclusions: The ecological niche model integrated with NDVI, LST, elevation, slope and distance from every village to its nearest stream adequately predicted the snail habitats in the mountainous regions. [ABSTRACT FROM AUTHOR]