Abstarct: Nowdays, biotechnology has a great role in the removal of heavy mextals from water and soils. Bacteria, fungi, yeast and sea algae are appropriate biosorbents that are normaly used for biosorption process. In this study, sorption of Cu and Mn ions from the Sarcheshme Copper Mine drainage was investigated by Bacillus Thurengiensis through both batch and continuous systems. Bacillus was isolated from the mine drainage. In batch studies, parameters that affect on biosorption were optimized. Optimized amounts of these parameters were 6, 150 mins, 1 gr/L and 308 ˚K for pH, contact time, biosorbent concentration and temperature respectively. Under optimum condition, 32% and 25% of Cu and Mn ions were successfully removed from acid mine drainage in the bach system. Sorption data were fitted to Langmuir and Freundlich models and fitness was better for Langmuir model. Maximum uptake for each ion was determined using Langmuir model and it was 2.29 and 9.17 mg/g for Cu and Mn ions respectively. In column studies the effect of different flow rates on biosorption of Cu and Mn ions from mine drainage was investigated. In the first 15 minutes and different flow rates, 100% of Cu and 90% of Mn was removed by the bed. Experimental results showed that increasing flow rate will decrease breakthrough time and equilibrium uptake. Breakthrough curves and column characteristic parameters were predicted using Thomas and Yoon-Nelson models. Desorption and biosorbent recovery experiments for batch and continuous systems were applied in 5 consecutive cycles. In each cycle, uptake was up to 90% of that amount obtained in the first cycle after each desorption and biosorbent recovery process