The glacier change in Manas River basin has a greatly effect on the economic and social development in the basin and its surrounding areas. Combined GF-1 and Landsat8 remote sensing images with four glacier inventory data of Manas River basin: the First Glacier Inventory Data (1964),the Second Inventory Data (2009) and the glacier visual interpreting results from TM (1998,2003),a comprehensive analysis was done on the glacier change in the basin from 1964 to 2013 by using glacier recognition method based on multi-source data and band ratio method to obtain the glacier data in the basin in 2013. The results reveal that the Manas River glaciers have slightly increased since 2009,with glacierized area increased 10.25 km~2 from 2009 to 2013,which restrained the rapid ablation of glaciers for a long time to some extent; from 1964 to 2013,the glacierized area of the Manas River basin had decreased 161.54 km~2,from 673.61 km~2 to 512.07 km~2,with a decreasing rate of 23.98%. Over the 50 years,the glacierized area in the basin had net decreased below the altitude of 4 500 meter and had net increased above the altitude of 4 500 meter. The maximum shrinking rate of glacier might go up to 0.5 km~2·a~(- 1) at an altitude of (4 000 100) meter. The reduction of glacierized area mainly exhibited in rapid ablation of small glaciers and in retreat of ice tongues mostly,with over 85% of the glacier tongues retreating more than 200 meters. Glacier change in the basin was mainly concentrated on south and north aspects; there was an obvious characteristic that glacierized area turned to increase after the first reduction in the south aspect. From 1964 to 2013,air temperature and precipitation in the basin had obviously increased,with linear increasing rates of 0.26 ℃·(10a)~(- 1) and 16.07 mm·(10a)~(- 1). The research results show that rising temperature and increasing precipitation are main reasons for glacier fluctuation in Manas River basin.