Abstract. Understanding variations in malaria transmission and exposure is critical to identify populations at risk and enable better targeting of interventions. The indigenous Batwa of southwestern Uganda have a disproportionate burden of malaria infection compared with their non-indigenous neighbors. To better understand the individual-and community-level determinants of malaria exposure, a seroepidemiological study was conducted in 10 local council cells in Kanungu District, Uganda, in April 2014. The Batwa had twice the odds of being seropositive to two Plasmodium falciparum-specific antigens, apical membrane antigen-1 and merozoite surface protein-1 19 , compared with the non-indigenous Bakiga (odds ratio = 2.08, 95% confidence interval = 1.51-2.88). This trend was found irrespective of altitude level and after controlling for cell location. Seroconversion rates in the Batwa were more than twice those observed in the Bakiga. For the Batwa, multiple factors may be associated with higher exposure to malaria and antibody levels relative to their non-indigenous neighbors.Considerable heterogeneity in malaria transmission levels and disease burden can be found within and between populations in endemic areas, due to variations in local vector populations, socioeconomic factors, and individual susceptibility.1,2 Understanding this variation is important to enable better deployment of interventions to reach the populations most at risk.Malaria transmission intensity is commonly measured using the entomological inoculation rate (EIR; the number of infectious bites per person per year) and/or parasite rate (the number of infected individuals per population). However, in low-transmission settings, these metrics lack sensitivity due to low numbers of infected mosquitos and humans. Serological techniques are increasingly used in the assessment of malaria transmission intensity and provide credible estimates of transmission that correlate well with EIR. 4 At an individual level, antibody responses can provide an alternative measure against which to assess risk of exposure to infection. 5,6 This study presents the results of a seroepidemiological study investigating exposure to malaria in the indigenous Batwa and neighboring non-indigenous populations in Kanungu District, located in southwestern Uganda, bordering the Democratic Republic of Congo. The district is largely rural and is characterized by mesoendemic malaria transmission with intermittent epidemics of disease. 7,8 Rainfall is bimodal with peaks in April and October.The Batwa are traditional hunter-gatherers from Uganda, Burundi, Rwanda, and eastern Congo.9 There are approximately 6,700 Batwa individuals residing in southwestern Uganda, comprising the easternmost population of central Africa's pygmy population. 10 In 1992, the Batwa in Uganda were evicted from their traditional forest homelands due to the formation of Bwindi Impenetrable National Park. 11 The dominant non-indigenous ethnic group in the region, the Bakiga, are traditional agriculturalists, origin...