Genomic analysis of Sweet potato feathery mottle virus from East Africa
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Date
2020
Journal Title
Journal ISSN
Volume Title
Publisher
Physiological and Molecular Plant Pathology
Abstract
Sweet potato feathery mottle virus is a potyvirus that infect sweet potato. The genome of the virus was analysed to
understand genetic diversity, evolution and gene flow. Motifs, nucleotide identity and a phylogenetic tree were
used to determine phylogroup of the isolates. Gene flow and genetic diversity were tested using DnaSP v.5.
Codons evolution were tested using three methods embedded in Datamonkey. The results indicate occurrence of
an isolate of phylogroup B within East Africa. Low genetic differentiation was observed between isolates from
Kenya and Uganda indicating evidence of gene flow between the two countries. Four genes were found to have
positively selected codons bordering or occurring within functional motifs. A motif within P1 gene evolved
differently between phylogroup A and B. The evidence of gene flow indicates frequent exchange of the virus
between the two countries and P1 gene motif provide a possible marker that can be used for mapping the
distribution of the phylogroups.
Description
Keywords
Sweet potato, Potyvirus, East Africa, Recombination, SPFMV
Citation
Wokorach, G., Otim, G., Njuguna, J., Edema, H., Njung'e, V., Machuka, E. M., ... & Echodu, R. (2020). Genomic analysis of Sweet potato feathery mottle virus from East Africa. Physiological and Molecular Plant Pathology, 110, 101473. https://doi.org/10.1016/j.pmpp.2020.101473