This paper presents an optimizing control scheme for simulated moving beds (SMB) that enables to incorporate multi-rate (MR) sampled measurements into the control and estimation problem in a clear and transparent manner. This is particularly relevant for chiral separations where online monitoring requires the combination of various analytical techniques that may operate on widely varying time scales. An MR periodic linear time-varying (PLTV) model is derived for the SMB process. The cyclic nature of the process is exploited by formulating the MR-PLTV model within a repetitive model predictive control framework. Simulation results for the chiral separation of the guaifenesin enantiomers are presented. The proposed multi-rate controller is able to deliver increased productivity while respecting the process and product specifications. (C) 2009 Elsevier Ltd. All rights reserved.