Phylodynamics and evolutionary epidemiology of African swine fever p72-CVR genes in Eurasia and Africa

PloS One
M A AlkhamisJosé Manuel Sánchez-Vizcaíno

Abstract

African swine fever (ASF) is a complex infectious disease of swine that constitutes devastating impacts on animal health and the world economy. Here, we investigated the evolutionary epidemiology of ASF virus (ASFV) in Eurasia and Africa using the concatenated gene sequences of the viral protein 72 and the central variable region of isolates collected between 1960 and 2015. We used Bayesian phylodynamic models to reconstruct the evolutionary history of the virus, to identify virus population demographics and to quantify dispersal patterns between host species. Results suggest that ASFV exhibited a significantly high evolutionary rate and population growth through time since its divergence in the 18th century from East Africa, with no signs of decline till recent years. This increase corresponds to the growing pig trade activities between continents during the 19th century, and may be attributed to an evolutionary drift that resulted from either continuous circulation or maintenance of the virus within Africa and Eurasia. Furthermore, results implicate wild suids as the ancestral host species (root state posterior probability = 0.87) for ASFV in the early 1700s in Africa. Moreover, results indicate the transmission cycle between...Continue Reading

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Citations

Mar 29, 2019·Transboundary and Emerging Diseases·Léopold K Mulumba-MfumuMary Louise Penrith
Dec 15, 2018·Transboundary and Emerging Diseases·Emmanuel Couacy-HymannCharles E Lamien
Jul 19, 2019·Virus Research·Margarida SimõesFernando Ferreira
Jul 23, 2019·Virus Research·Alexander Malogolovkin, Denis Kolbasov
Mar 6, 2021·Virus Research·Dongyan XiongHongping Wei
May 27, 2021·Trends in Ecology & Evolution·Claire GuinatTanja Stadler
Aug 8, 2020·Journal of Virological Methods·David A MeekinsJuergen A Richt

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Methods Mentioned

BETA
genotyping

Software Mentioned

Bayesian Tip - Significance Testing ( BaTS )
Matlab
AliView
TempEst
Tracer
PartitionFinder
Recombination Detection Program
RAxML
MUSCLE
TreeAnotator

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