Many parasites exhibit antigenic variation within their hosts. We use mathematical models to investigate the dynamical interaction between an antigenically varying parasite and the host's immune system. The models incorporate antigenic variation in the parasite population and the generation of immune responses directed against (i) antigens specific to individual parasite variants and (ii) antigens common to all the parasite variants. Analysis of the models allows us to evaluate the relative importance of variantspecific and cross-reactive immune responses in controlling the parasite. Early in the course of infection within the host, when parasite diversity is below a defined threshold value (the value is determined by the biological properties of the parasite and of the host's immune response), the variant-specific immune responses are predominant. Later, when the parasite diversity is high, the cross-reactive immune response is largely responsible for controlling the parasitemia. It is argued that increasing antigenic diversity leads to a switch from variantspecific to cross-reactive immune responses. These simple models mimic various features of observed infections recorded in the experimental literature, including an initial peak in parasitemia, a long and variable duration of infection with fluctuating parasitemia that ends with either the clearance of the parasite or persistent infection.As molecular techniques are used more widely in epidemiological studies of infectious diseases, antigenic variability is found in many host-parasite associations (1-3). The production of immunologically novel parasite strains or variants can affect the dynamics of parasite populations at both the between-host and the within-host levels. At the between-host or epidemiological level, the generation of antigenically different strains (which elicit little or limited cross-immunity in the host) will allow the infection of individual hosts with several distinct parasite strains, thus increasing the possible size of the parasite population within the host community (4, 5). The influenza viruses (6), the cholera bacillus Vibro cholerae (7), the malaria parasite Plasmodium falciparum (8), and Giardia lamblia, the protozoan that causes Giardiasis (9), exhibit strain variation in human populations. At the within-host level, the rapid generation of antigenic variants can enhance the likelihood of parasite persistence in the face of a hostile immune response, thereby prolonging the duration of infectiousness and concomitantly increasing the potential for transmission to a new host. The protozoans Trypanosoma brucei (10,11) (21,22). As can be seen in Fig. 1 the dynamics of T. vivax within its natural host (cattle) begins with a rapid rise in parasitemia, which is followed by a long and variable duration of infection and the eventual clearance of the parasite or its control at very low densities. In addition to the complex pattern of parasitemia, we observe a large diversity in the profiles of parasitemia in different individuals...