Abstarct: Acid Mine Drainage (AMD) containing high concentrations of heavy mextals leads to many environmental problems. AMD occurs when sulphide-bearing minerals in rock are exposed to air and water, changing the sulphide to sulphuric acid that in turn dissolves heavy mextals. The concentrations of Cu and Mn are high in the Sarcheshmeh copper mine drainages, southeast Iran. In this study, the biosorption of Cu and Mn ions from the Sarcheshmeh drainage was investigated using two native funguses called Aspergillus niger and Phanerochaete chrysosporium. The biosorption capacity of these two funguses was then compared. The live fungi was first harvested and then killed by boiling in 0.5 N NaOH solution. The biomass was finally dried at 60 for 24 h and powdered. The optimum biosorption parameters including pH, temperature, the amount of biosorbent, contact time and stirring speed were determined in a batch system. The optimum pH range was 5-6. It was found that the biosorption process increased with an increase in temperature and the amount of biosorbent. Increasing stirring speed raised biosorption process by Aspergillus niger whereas, biosorption by Phanerochaete chrysosporium decreased with stirring speed in particular for speeds above 150 rpm. Biosorption data were attempted by various adsorption isotherms including Langmuir and Freundlich models. It was found that the biosorption process follows well the Langmuir isotherm model. Kinetics studies were also performed in the present study. The results show that the second-order kinetics model suits well the experimental data. The biosorption experiments were further carried out with a continuous system to compare the biosorption capacities obtained by this method and the batch system. The results fit well the Yoon-Nelson model. This research also contains the results obtained by desorption process in order to investigate reusing and recovering heavy mextals. The biomass of Aspergillus niger and Phanerochaete chrysosporium are suitable biosorbents for the removal of heavy mextals from acid mine drainage.