Var genes, strain hyperdiversity, and malaria transmission dynamics

The microbiological paradigm for surveillance of diverse pathogens requires knowledge of the variation of the major surface antigen under the most intense immune selection as immune responses to these antigens drive transmission dynamics. This creates a pathway for population genetics/genomics to be combined with mathematical modelling to describe transmission dynamics to inform public health policy. Here we consider how we can bring population genetics and population dynamics together for a highly recombining pathogen like Plasmodium falciparum. We do this through the lens of what has been recently learnt about the population genetics of the var multigene family encoding the major surface antigen of the blood stages of Plasmodium falciparum, known as PfEMP1.