Molecular diversity of Chickpea chlorotic dwarf virus in Sudan: High rates of intra-species recombination – a driving force in the emergence of new strains

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dc.contributor.authorKraberger, S
dc.contributor.authorKumari, S G
dc.contributor.authorHamed, A A
dc.contributor.authorGronenborn, B
dc.contributor.authorThomas, J E
dc.contributor.authorSharman, M
dc.contributor.authorHarkins, G W
dc.contributor.authorMuhire, B M
dc.contributor.authorMartin, D P
dc.contributor.authorVarsan, A
dc.date.accessioned2016-08-11T14:44:02Z
dc.date.available2016-08-11T14:44:02Z
dc.date.issued2015
dc.date.updated2016-08-11T12:17:02Z
dc.description.abstractSudan Chickpea chlorotic dwarf virus (CpCDV, genus Mastrevirus, family Geminiviridae) is an important pathogen of pulses that are grown both for local consumption, and for export. Although a few studies have characterised CpCDV genomes from countries in the Middle East, Africa and the Indian subcontinent, little is known about CpCDV diversity in any of the major chickpea production areas in these regions. Here we analyse the diversity of 146 CpCDV isolates characterised from pulses collected across the chickpea growing regions of Sudan. Although we find that seven of the twelve known CpCDV strains are present within the country, strain CpCDV-H alone accounted for 73% of the infections analysed. Additionally we identified four new strains (CpCDV-M, -N, -O and -P) and show that recombination has played a significant role in the diversification of CpCDV, at least in this region. Accounting for observed recombination events, we use the large amounts of data generated here to compare patterns of natural selection within protein coding regions of CpCDV and other dicot-infecting mastrevirus species.en_ZA
dc.identifierhttp://dx.doi.org/10.1016/j.meegid.2014.11.024
dc.identifier.apacitationKraberger, S., Kumari, S. G., Hamed, A. A., Gronenborn, B., Thomas, J. E., Sharman, M., ... Varsan, A. (2015). Molecular diversity of Chickpea chlorotic dwarf virus in Sudan: High rates of intra-species recombination – a driving force in the emergence of new strains. <i>Infection, Genetics and Evolution</i>, http://hdl.handle.net/11427/21204en_ZA
dc.identifier.chicagocitationKraberger, S, S G Kumari, A A Hamed, B Gronenborn, J E Thomas, M Sharman, G W Harkins, B M Muhire, D P Martin, and A Varsan "Molecular diversity of Chickpea chlorotic dwarf virus in Sudan: High rates of intra-species recombination – a driving force in the emergence of new strains." <i>Infection, Genetics and Evolution</i> (2015) http://hdl.handle.net/11427/21204en_ZA
dc.identifier.citationKraberger, S., Kumari, S. G., Hamed, A. A., Gronenborn, B., Thomas, J. E., Sharman, M., ... & Varsani, A. (2015). Molecular diversity of Chickpea chlorotic dwarf virus in Sudan: High rates of intra-species recombination–a driving force in the emergence of new strains. Infection, Genetics and Evolution, 29, 203-215.en_ZA
dc.identifier.issn1567-1348en_ZA
dc.identifier.ris TY - Journal Article AU - Kraberger, S AU - Kumari, S G AU - Hamed, A A AU - Gronenborn, B AU - Thomas, J E AU - Sharman, M AU - Harkins, G W AU - Muhire, B M AU - Martin, D P AU - Varsan, A AB - Sudan Chickpea chlorotic dwarf virus (CpCDV, genus Mastrevirus, family Geminiviridae) is an important pathogen of pulses that are grown both for local consumption, and for export. Although a few studies have characterised CpCDV genomes from countries in the Middle East, Africa and the Indian subcontinent, little is known about CpCDV diversity in any of the major chickpea production areas in these regions. Here we analyse the diversity of 146 CpCDV isolates characterised from pulses collected across the chickpea growing regions of Sudan. Although we find that seven of the twelve known CpCDV strains are present within the country, strain CpCDV-H alone accounted for 73% of the infections analysed. Additionally we identified four new strains (CpCDV-M, -N, -O and -P) and show that recombination has played a significant role in the diversification of CpCDV, at least in this region. Accounting for observed recombination events, we use the large amounts of data generated here to compare patterns of natural selection within protein coding regions of CpCDV and other dicot-infecting mastrevirus species. DA - 2015 DB - OpenUCT DP - University of Cape Town J1 - Infection, Genetics and Evolution LK - https://open.uct.ac.za PB - University of Cape Town PY - 2015 SM - 1567-1348 T1 - Molecular diversity of Chickpea chlorotic dwarf virus in Sudan: High rates of intra-species recombination – a driving force in the emergence of new strains TI - Molecular diversity of Chickpea chlorotic dwarf virus in Sudan: High rates of intra-species recombination – a driving force in the emergence of new strains UR - http://hdl.handle.net/11427/21204 ER - en_ZA
dc.identifier.urihttp://hdl.handle.net/11427/21204
dc.identifier.vancouvercitationKraberger S, Kumari SG, Hamed AA, Gronenborn B, Thomas JE, Sharman M, et al. Molecular diversity of Chickpea chlorotic dwarf virus in Sudan: High rates of intra-species recombination – a driving force in the emergence of new strains. Infection, Genetics and Evolution. 2015; http://hdl.handle.net/11427/21204.en_ZA
dc.language.isoeng
dc.publisherElsevieren_ZA
dc.publisher.institutionUniversity of Cape Town
dc.rightsCreative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)*
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/4.0/en_ZA
dc.sourceInfection, Genetics and Evolutionen_ZA
dc.source.urihttp://www.sciencedirect.com/science/journal/15671348
dc.subject.otherMastrevirus
dc.subject.otherGeminivirus
dc.subject.otherChickpea chlorotic dwarf virus
dc.subject.otherRecombination
dc.subject.otherSudan
dc.subject.otherChickpea
dc.titleMolecular diversity of Chickpea chlorotic dwarf virus in Sudan: High rates of intra-species recombination – a driving force in the emergence of new strainsen_ZA
dc.typeJournal Articleen_ZA
uct.type.filetypeText
uct.type.filetypeImage
uct.type.publicationResearchen_ZA
uct.type.resourceArticleen_ZA
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