Precision Tracing of Household Dengue Spread Using Inter- and Intra-Host Viral Variation Data, Kamphaeng Phet, Thailand

• Published in: Emerging infectious diseases Vol. 27; no. 6; pp. 1637 - 1644
• Main Authors: Berry, Irina Maljkovic, Melendrez, Melanie C, Pollett, Simon, Figueroa, Katherine, Buddhari, Darunee, Klungthong, Chonticha, Nisalak, Ananda, Panciera, Michael, Thaisomboonsuk, Butsaya, Li, Tao, Vallard, Tyghe G, Macareo, Louis, Yoon, In-Kyu, Thomas, Stephen J, Endy, Timothy, Jarman, Richard G
• Format: Journal Article
• Language: English
• Published: United States U.S. National Center for Infectious Diseases 01.06.2021; Centers for Disease Control and Prevention
• Subjects: arboviruses; Cladistic analysis; Contact tracing; Control; Dengue; Disease transmission; Distribution; Epidemics; Epidemiology; Genomes; Health aspects; Health surveillance; Households; Infections; inter-host variants; intra-host variants; Methods; Precision Tracing of Household Dengue Spread Using Inter- and Intra-Host Viral Variation Data, Kamphaeng Phet, Thailand; Public health; Technology application; transmission chains; Vector-borne diseases; Viruses; Thailand; intra-host variants; viruses; vector-borne infections; mosquitoborne diseases; arboviruses; transmission chains; inter-host variants; Thailand; dengue; Kamphaeng Phet
• ISSN: 1080-6040; 1080-6059
• DOI: 10.3201/eid2706.204323

Dengue control approaches are best informed by granular spatial epidemiology of these viruses, yet reconstruction of inter- and intra-household transmissions is limited when analyzing case count, serologic, or genomic consensus sequence data. To determine viral spread on a finer spatial scale, we extended phylogenomic discrete trait analyses to reconstructions of house-to-house transmissions within a prospective cluster study in Kamphaeng Phet, Thailand. For additional resolution and transmission confirmation, we mapped dengue intra-host single nucleotide variants on the taxa of these time-scaled phylogenies. This approach confirmed 19 household transmissions and revealed that dengue disperses an average of 70 m per day between households in these communities. We describe an evolutionary biology framework for the resolution of dengue transmissions that cannot be differentiated based on epidemiologic and consensus genome data alone. This framework can be used as a public health tool to inform control approaches and enable precise tracing of dengue transmissions.