The Burden of Chikungunya and Onyong’nyong Viral Infections in Uganda: A Hospital-Based Sentinel Surveillance Study

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Abstract Background Chikungunya and Onyong’nyong viruses are mosquito-borne alphaviruses endemic to Africa, causing febrile illness with severe joint pain. While Chikungunya virus is known for its potential to cause life-threatening complications in neonates and vulnerable populations, Onyong’nyong virus remains vastly underreported due to weak surveillance and diagnostic overlap. As a result, Onyong’nyong virus’s true burden and epidemic potential remain dangerously underestimated. Methods We conducted sentinel hospital-based surveillance in Uganda to assess the occurrence, geographical distribution, and clinical manifestation of Chikungunya and Onyong’nyong viruses. Serological and molecular diagnostic methods were employed to detect active and recent infections. Epidemiological data were analyzed to characterize clinical manifestations and determine risk factors for severe disease. Results A total of 2,756 serum samples were collected from febrile patients across 63 districts in Uganda between 2018 and 2022. While no Chikungunya infection was detected by PCR, two cases tested positive for Onyong’nyong virus. Serological evidence of recent alphavirus infection was found in 8.79% of samples, with peak prevalence in 2020. Most positive cases reported fever, joint and muscle pain, and other non-specific symptoms. PRNT analysis revealed stronger neutralizing antibody responses to Onyong’nyong virus than Chikungunya virus, suggesting ongoing but under-recognized Onyong’nyong virus transmission across Uganda. Conclusion This study underscores the endemic nature of Onyong’nyong virus in Uganda and the need for enhanced surveillance, improved diagnostic capacity, and targeted public health interventions. These findings will inform clinical management strategies and contribute to preparedness against future outbreaks.

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