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Molecular characterization of a new virus species identified in yam (Dioscorea spp.) by high-throughput sequencing

dc.contributor.authorSilva, G.
dc.contributor.authorBömer, M.
dc.contributor.authorRathnayake, A.I.
dc.contributor.authorSewe, S.O.
dc.contributor.authorVisendi, P.
dc.contributor.authorOyekanmi, J.O.
dc.contributor.authorQuain, M.D.
dc.contributor.authorAkomeah, B.
dc.contributor.authorKumar, P.L.
dc.contributor.authorSeal, S.E.
dc.date.accessioned2019-12-04T11:33:58Z
dc.date.available2019-12-04T11:33:58Z
dc.date.issued2019-06
dc.identifier.citationSilva, G., Bömer, M., Rathnayake, A.I., Sewe, S.O., Visendi, P., Oyekanmi, J. O., ... & Seal, S.E. (2019). Molecular characterization of a new virus species identified in yam (Dioscorea spp.) by high-throughput sequencing. Plants, 8(6), 167-176.
dc.identifier.issn2223-7747
dc.identifier.urihttps://hdl.handle.net/20.500.12478/5859
dc.descriptionOpen Access Journal; Published online: 11 June 2019
dc.description.abstractTo date, several viruses of different genera have been reported to infect yam (Dioscorea spp.). The full diversity of viruses infecting yam, however, remains to be explored. High-throughput sequencing (HTS) methods are increasingly being used in the discovery of new plant viral genomes. In this study, we employed HTS on yam to determine whether any undiscovered viruses were present that would restrict the international distribution of yam germplasm. We discovered a new virus sequence present in 31 yam samples tested and have tentatively named this virus “yam virus Y” (YVY). Twenty-three of the samples in which YVY was detected showed mosaic and chlorotic leaf symptoms, but Yam mosaic virus was also detected in these samples. Complete genome sequences of two YVY viral isolates were assembled and found to contain five open reading frames (ORFs). ORF1 encodes a large replication-associated protein, ORF2, ORF3 and ORF4 constitute the putative triple gene block proteins, and ORF5 encodes a putative coat protein. Considering the species demarcation criteria of the family Betaflexiviridae, YVY should be considered as a novel virus species in the family Betaflexiviridae. Further work is needed to understand the association of this new virus with any symptoms and yield loss and its implication on virus-free seed yam production.
dc.description.sponsorshipBill & Melinda Gates Foundation
dc.format.extent167-176
dc.language.isoen
dc.rightsCC-BY-4.0
dc.subjectRna
dc.subjectBetaflexiviridae
dc.subjectYams
dc.subjectViruses
dc.subjectNigeria
dc.subjectGhana
dc.subjectGenomes
dc.subjectMolecular Markers
dc.titleMolecular characterization of a new virus species identified in yam (Dioscorea spp.) by high-throughput sequencing
dc.typeJournal Article
dc.description.versionPeer Review
cg.contributor.crpMaize
cg.contributor.crpRoots, Tubers and Bananas
cg.contributor.affiliationUniversity of Greenwich
cg.contributor.affiliationQueensland University of Technology
cg.contributor.affiliationInternational Institute of Tropical Agriculture
cg.contributor.affiliationCouncil for Scientific and Industrial Research, Ghana
cg.coverage.regionAfrica
cg.coverage.regionWest Africa
cg.coverage.countryGhana
cg.coverage.countryNigeria
cg.creator.identifierP. Lava Kumar: 0000-0003-4388-6510
cg.researchthemePLANT PRODUCTION & HEALTH
cg.isijournalISI Journal
cg.authorship.typesCGIAR and developing country institute
cg.iitasubjectGenetic Improvement
cg.iitasubjectPlant Genetic Resources
cg.iitasubjectPlant Health
cg.iitasubjectYam
cg.journalPlants
cg.howpublishedFormally Published
cg.accessibilitystatusOpen Access
local.dspaceid105624
cg.targetaudienceScientists
cg.identifier.doihttps://dx.doi.org/10.3390/plants8060167


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