It is technologically possible for a biorefinery to use a variety of biomass as feedstock including native perennial grasses (e.g., switchgrass) and agricultural residues (e.g., corn stalk and wheat straw). Incorporating the distinct characteristics of various types of biomass feedstocks and taking into account their interaction in supplying the bioenergy production, this paper proposed a multi-commodity network flow model to design the logistics system for a multiple-feedstock biomass-to-bioenergy industry. The model was formulated as a mixed integer linear programming, determining the locations of warehouses, the size of harvesting team, the types and amounts of biomass harvested/purchased, stored, and processed in each month, the transportation of biomass in the system, and so on. This paper demonstrated the advantages of using multiple types of biomass feedstocks by comparing with the case of using a single feedstock (switchgrass) and analyzed the relationship of the supply capacity of biomass feedstocks to the output and cost of biofuel. (C) 2011 Elsevier Ltd. All rights reserved.