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    Assessment of Yam mild mosaic virus coat protein gene sequence diversity reveals the prevalence of cosmopolitan and African group of isolates in Ghana and Nigeria

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    Journal Article (1.184Mb)
    Date
    2020-09
    Author
    Nkere, C.K.
    Otto, E.
    Atiri, G.I.
    Onyeka, J.
    Silva, G.
    Bömer, M.
    Seal, S.E.
    Kumar, P.L.
    Type
    Journal Article
    Review Status
    Peer Review
    Target Audience
    Scientists
    Metadata
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    Abstract/Description
    This study analyzed the genetic diversity of 18 Yam mild mosaic virus (YMMV, genus Potyvirus) isolates collected from field surveys in Ghana (N = 8) and Nigeria (N = 10) in 2012−13. The full coat protein (CP) encoding region of the virus genome was sequenced and used for comparison and phylogenetic analysis of the YMMV isolates available in the NCBI nucleotide database. The mean nucleotide (nt) diversity was 13.4% among the 18 isolates (17 from D. alata and one from D. rotundata), 11.4% within the isolates of Ghana and 7.4% within the isolates of Nigeria. The phylogenetic clustering of the 18 YMMV isolates did not show correlation with the country of origin, and they aligned with the reference sequences of four of the 11 YMMV monophyletic groups representing the cosmopolitan group and the African group of YMMV isolates. High sequence homology of 99% between the YMMV sequence from Nigeria (CP12-DaN6-1) and a previously reported sequence from Togo (GenBank Accession Number AF548514) suggests a prevalence of seed-borne virus spread within the region. Understanding YMMV sequence diversity in West Africa aid in the improvement of diagnostic assays necessary for virus indexing and seed certification.
    https://dx.doi.org/10.1016/j.cpb.2020.100156
    Multi standard citation
    Permanent link to this item
    https://hdl.handle.net/20.500.12478/7415
    IITA Authors ORCID
    Nkere C. K.https://orcid.org/0000-0002-1212-0785
    P. Lava Kumarhttps://orcid.org/0000-0003-4388-6510
    Digital Object Identifier (DOI)
    https://dx.doi.org/10.1016/j.cpb.2020.100156
    Research Themes
    Plant Production and Health
    IITA Subjects
    Agronomy; Disease Control; Food Security; Genetic Improvement; Plant Breeding; Plant Diseases; Plant Genetic Resources; Plant Health; Plant Production; Yam
    Agrovoc Terms
    Yams; Dioscorea; Viruses; Ghana; Nigeria; Genetic Variation
    Regions
    Africa; West Africa
    Countries
    Ghana; Nigeria
    Hubs
    Headquarters and Western Africa Hub
    Journals
    Current Plant Biology
    Collections
    • Journal and Journal Articles4835
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