DOI: 10.5061/dryad.4r15q60
title: Data from: Phylogeographic and cross-species transmission dynamics of SAT1 and SAT2 Foot-and-Mouth Disease Virus in Eastern Africa

description: Understanding the dynamics of foot-and-mouth disease virus (FMDV), an
 endemic and economically constraining disease, is critical in designing
 control programs in Africa. This study investigates the evolutionary
 epidemiology of SAT1 and SAT2 FMDV in Eastern Africa, as well as between
 cattle and wild African buffalo. Bayesian phylodynamic models were used to
 analyze SAT1 and SAT2 VP1 gene segments collected between 1975 and 2016,
 focusing on the SAT1 and SAT2 viruses currently circulating in Eastern
 Africa. The root state posterior probabilities inferred from our analyses
 suggest Zimbabwe as the ancestral location for SAT1 currently circulating
 in Eastern Africa (P=0.67). For the SAT2 clade, Kenya is inferred to be
 the ancestral location for introduction of the virus into other countries
 in Eastern Africa (P=0.72). Salient (Bayes Factor &gt;10) viral
 dispersal routes were inferred from Tanzania to Kenya, and from Kenya to
 Uganda for SAT1 and SAT2, respectively. Results suggest that cattle are
 the source of the SAT1 and SAT2 clades currently circulating in Eastern
 Africa. In addition, our results suggest that the majority of SAT1 and
 SAT2 in livestock come from other livestock rather than wildlife, with
 limited evidence that buffalo serve as reservoirs for cattle. Insights
 from the present study highlight the role of cattle movements and
 anthropogenic activities in shaping the evolutionary history of SAT1 and
 SAT2 in Eastern Africa. While the results may be affected by inherent
 limitations of imperfect surveillance, our analysis elucidates the
 dynamics between host species in this region, which is key to guiding
 disease intervention activities
description: SAT1 Host BEAST
 FileBEAST data and priors
 for running a discrete trait model for host species transmission of FMD
 SAT1 in East AfricaSAT1_Discrete_Host_Asymmteric_BEAST.xmlSAT1 BEAST phylogeographic fileBEAST data and priors for running a discrete trait model for geographic transmission of FMD SAT1 in East AfricaSAT1_Phylogeographic_Asymmteric_BEAST.xmlSAT2 Host BEAST fileContains data and prior for running a discrete trait model for host transmission of FMD SAT2 in east AfricaSAT2_Discrete_Host_Asymmteric_BEAST.xmlSAT2 Phylogeography BEAST fileContains data and prior for running a discrete trait model for phylogeography of FMD SAT2 in east AfricaSAT2_Phylogeographic_Asymmteric_BEAST.xmlSAT1 sequences fileContains sequences and their Genbank accession numbers used in the phylodynamic analysesSAT1.nexSAT2 sequences fileContains sequences and their Genbank accession numbers used in the phylodynamic analysesSAT2.nexSAT1 host MCC tree fileContains the summarized maximum clade credibility tree file for the host transmission of FMD SAT1 in East AfricaSAT1_Discrete_Host_Asymmteric_MCC.treSAT1 phylogeography MCC tree fileContains the summarized maximum clade credibility tree file for the phylogeography of FMD SAT1 in East AfricaSAT1_Phylogeographic_Asymmteric_MCC.treSAT2 phylogeography MCC tree fileContains the summarized Maximum clade credibility tree for the phylogeography of FMD SAT2 in East AfricaSAT2_Phylogeographic_Asymmteric_MCC.tre