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It is necessary that the satellite transponder has ability to suppress interferences for reliable communications in real applications, specially military areas. Adaptive interference suppression methods using transform domain approach are presented for an on-board filter bank in this paper. The three kinds of algorithms to compute the threshold level are jointly evaluated with the notch filter or the clipper under different interfered environments. From simulation results, it is verified that the proposed methods are helpful to overcome the performance degradation due to interferences. Especially, Notch-Alg. 2 which uses the notch filter and the sample mean of energies of frequency bins shows the best bit error rate (BER) performance in all considered interferences.