Next generation sequencing and genetic analyses reveal factors driving evolution of sweetpotato viruses in Uganda

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cg.authorship.typesCGIAR and developing country instituteen
cg.authorship.typesCGIAR and advanced research instituteen
cg.contributor.affiliationNational Agricultural Research Organisation, Ugandaen
cg.contributor.affiliationInternational Livestock Research Instituteen
cg.contributor.affiliationMakerere Universityen
cg.contributor.affiliationMuni Universityen
cg.contributor.affiliationInternational Potato Centeren
cg.contributor.affiliationNorth Carolina State Universityen
cg.contributor.affiliationMax Planck Institute for Plant Breeding Researchen
cg.contributor.affiliationMichigan State Universityen
cg.contributor.donorAfrica Biosciences Challenge Funden
cg.contributor.donorBill & Melinda Gates Foundationen
cg.contributor.donorGovernment of Ugandaen
cg.contributor.donorMawazo Instituteen
cg.coverage.countryUganda
cg.coverage.iso3166-alpha2UG
cg.coverage.regionAfrica
cg.coverage.regionEastern Africa
cg.creator.identifierJoanne Adero: 0000-0002-9557-639X
cg.creator.identifierFrancesca Stomeo: 0000-0003-1776-6128
cg.creator.identifierNasser K. Yao: 0000-0002-1183-708X
cg.creator.identifierEunice Machuka: 0000-0002-1142-3442
cg.creator.identifierJoyce Njuguna: 0000-0003-2008-3387
cg.creator.identifierJan Kreuze: 0000-0002-6116-9200
cg.howPublishedFormally Publisheden
cg.identifier.doihttps://doi.org/10.3390/pathogens13100833en
cg.isijournalISI Journalen
cg.issn2076-0817en
cg.issue10en
cg.journalPathogensen
cg.reviewStatusPeer Reviewen
cg.subject.ilriCROPSen
cg.subject.ilriRESEARCHen
cg.subject.sdgSDG 2 - Zero hungeren
cg.volume13en
dc.contributor.authorAdero, Joanneen
dc.contributor.authorWokorach, G.en
dc.contributor.authorStomeo, Francescaen
dc.contributor.authorYao, Nasseren
dc.contributor.authorMachuka, Euniceen
dc.contributor.authorNjuguna, Joyceen
dc.contributor.authorByarugaba, D.K.en
dc.contributor.authorKreuze, J.en
dc.contributor.authorYencho, G.C.en
dc.contributor.authorOtema, M.A.en
dc.contributor.authorYada, B.en
dc.contributor.authorKitavi, M.en
dc.date.accessioned2024-09-28T15:49:42Zen
dc.date.available2024-09-28T15:49:42Zen
dc.identifier.urihttps://hdl.handle.net/10568/152451
dc.titleNext generation sequencing and genetic analyses reveal factors driving evolution of sweetpotato viruses in Ugandaen
dcterms.abstractSweetpotato (<i>Ipomoea batatas</i> L.) is an essential food crop globally, especially for farmers facing resource limitations. Like other crops, sweetpotato cultivation faces significant production challenges due to viral infections. This study aimed to identify and characterize viruses affecting sweetpotato crops in Uganda, mostly those associated with sweetpotato virus disease (SPVD). Infected leaf samples were collected from farmers’ fields in multiple districts spanning three regions in Uganda. MiSeq, a next-generation sequencing platform, was used to generate reads from the viral nucleic acid. The results revealed nine viruses infecting sweetpotato crops in Uganda, with most plants infected by multiple viral species. Sweet potato pakakuy and sweet potato symptomless virus_1 are reported in Uganda for the first time. Phylogenetic analyses demonstrated that some viruses have evolved to form new phylogroups, likely due to high mutations and recombination, particularly in the coat protein, P1 protein, cylindrical inclusion, and helper component proteinase regions of the potyvirus. The sweet potato virus C carried more codons under positive diversifying selection than the closely related sweet potato feathery mottle virus, particularly in the P1 gene. This study provides valuable insights into the viral species infecting sweetpotato crops, infection severity, and the evolution of sweet potato viruses in Uganda.en
dcterms.accessRightsOpen Access
dcterms.audienceAcademicsen
dcterms.audienceScientistsen
dcterms.available2024-09-26
dcterms.bibliographicCitationAdero, J., Wokorach, G., Stomeo, F., Yao, N., Machuka, E., Njuguna, J., Byarugaba, D.K., Kreuze, J., Yencho, G.C., Otema, M.A., Yada, B. and Kitavi, M. 2024. Next generation sequencing and genetic analyses reveal factors driving evolution of sweetpotato viruses in Uganda. Pathogens 13(10): 833.en
dcterms.extent833en
dcterms.issued2024-10-01
dcterms.languageen
dcterms.licenseCC-BY-4.0
dcterms.publisherMDPIen
dcterms.subjectgenomicsen
dcterms.subjectsweet potatoesen
dcterms.subjecthigh-throughput sequencingen
dcterms.typeJournal Article

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