Genetic diversity of foot-and-mouth disease virus serotype O in Pakistan and Afghanistan, 1997–2009

Syed Muhammad Jamal, Giancarlo Ferrari, Safia Ahmed, Preben Normann, Graham Belsham

    Research output: Contribution to journalJournal articleResearchpeer-review

    Abstract

    Foot-and-mouth disease (FMD) is endemic in Pakistan and Afghanistan; serotypes O, A and Asia-1 of the virus are responsible for the outbreaks in these countries with FMDV type O usually being the most common. In the present study, the nucleotide sequences encoding the FMDV capsid protein VP1 from virus samples were determined. Phylogenetic analysis of the serotype O FMD viruses circulating in Pakistan and Afghanistan between 1997 and 2009 revealed the presence of at least three different lineages within the ME-SA (Middle East South Asia) topotype. The three lineages detected in this study are Pak98, Iran2001 and PanAsia. The PanAsia lineage is currently dominant in the area and is evolving with time as revealed by the appearance of distinct variants e.g. PanAsia-II and a new variant designated here as PanAsia-III. The rates of evolution of the O-PanAsia-II and III sublineages prevalent in the region were found to be 6.65×10−3 (95% CI=5.49–7.80×10−3) and 7.80×10−3 (95% CI=6.72–8.89×10−3) substitutions per nucleotide per year, respectively. The present study reveals the presence of multiple (sub-)lineages of FMDV serotype O co-circulating in the region and that significant new variants are frequently emerging.
    Original languageEnglish
    JournalInfection, Genetics and Evolution
    Volume11
    Issue number6
    Pages (from-to)1229-1238
    ISSN1567-1348
    DOIs
    Publication statusPublished - 2011

    Keywords

    • Picornavirus
    • RNA sequence
    • Genetic characterization
    • FMD
    • Evolution
    • Molecular epidemiology

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