Ideal wound dressing materials should be active components in the healing process. Bacterial cellulose (BC) has attracted a great deal of attention as novel wound dressing materials; however, it has no intrinsic antimicrobial activity. To explore the practical application values of BC and develop novel wound dressing materials, a series of composite membranes based on BC and polymeric ionic liquids (BC/PILs, composed of BC, and PILs formed by choline and different amino acids) with antimicrobial activity were synthesized by an ex situ method. The physicochemical and antimicrobial properties and biocompatibility of these membranes were systematically investigated. The results indicated that BC/PIL membranes with excellent properties could be obtained by adjusting the concentration and type of PILs. Several kinds of BC/PIL membranes exhibited good biocompatibility and high antimicrobial activity against Gram-positive and Gram-negative bacteria and fungus. The anionic PILs played important roles in the antimicrobial activity of BC/PIL membranes. The obtained membranes provided a novel promising candidate for wound dressing materials.