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A mid-density single-nucleotide polymorphism panel for molecular applications in cowpea (Vigna unguiculata (L.) Walp)

dc.contributor.authorOngom, P.O.
dc.contributor.authorFatokun, C.
dc.contributor.authorTogola, A.
dc.contributor.authorGarcia-Oliveira, A.L.
dc.contributor.authorNg, E.H.
dc.contributor.authorKilian, A.
dc.contributor.authorLonardi, S.
dc.contributor.authorClose, T.J.
dc.contributor.authorBoukar, O.
dc.date.accessioned2024-03-22T11:15:40Z
dc.date.available2024-03-22T11:15:40Z
dc.date.issued2024-01-01
dc.identifier.citationOngom, P.O., Fatokun, C., Togola, A., Garcia-Oliveira, A.L., Ng, E.H., Kilian, A., ... & Boukar, O. (2024). A mid-density single-nucleotide polymorphism panel for molecular applications in cowpea (Vigna unguiculata (L.) Walp). International Journal of Genomics, 9912987, 1-19.
dc.identifier.issn2314-436X
dc.identifier.urihttps://hdl.handle.net/20.500.12478/8451
dc.description.abstractMolecular markers are increasingly being deployed to accelerate genetic gain in crop plants. The objective of this study was to assess the potential of a mid-density genotyping panel for molecular applications in cowpea breeding. A core set of 2,602 targeted diversity array technology (DArTag) single-nucleotide polymorphisms (SNPs) was designed from an existing 51,128 Cowpea iSelect Consortium Array. The panel’s usefulness was assessed using 376 genotypes from different populations of known genetic backgrounds. The panel was informative, with over 78% of SNPs exceeding a minor allele frequency of 0.20. The panel decoded three stratifications in the constituted population, as was expected. Linkage disequilibrium (LD) decay was correctly depicted as slower in a biparental subset than in other populations. A known flower and seed coat color gene region was located on chromosome Vu07, suggesting that the mid-density panel may be used to hypothesize genomic regions underlying target traits in cowpea. Unexpected heterozygosity was detected in some lines and highly among F1 progenies, divulging the panel’s potential application in germplasm purity and hybridity verification. The study unveils the potential of an excellent genomic resource that can be tapped to enhance the development of improved cowpea cultivars.
dc.description.sponsorshipBill & Melinda Gates Foundation
dc.format.extent1-19
dc.language.isoen
dc.subjectSingle Nucleotide Polymorphisms
dc.subjectCowpeas
dc.subjectGrain Legumes
dc.subjectMolecular Markers
dc.titleA mid-density single-nucleotide polymorphism panel for molecular applications in cowpea (Vigna unguiculata (L.) Walp)
dc.typeJournal Article
cg.contributor.crpGrain Legumes
cg.contributor.affiliationInternational Institute of Tropical Agriculture
cg.contributor.affiliationInternational Maize and Wheat Improvement Center
cg.contributor.affiliationUniversity of Canberra
cg.contributor.affiliationUniversity of California
cg.coverage.regionAfrica
cg.coverage.regionWest Africa
cg.coverage.countryNigeria
cg.coverage.hubHeadquarters and Western Africa Hub
cg.researchthemeBiotech and Plant Breeding
cg.identifier.bibtexciteidONGOM:2024
cg.isijournalISI Journal
cg.authorship.typesCGIAR and advanced research institute
cg.iitasubjectAgronomy
cg.iitasubjectCowpea
cg.iitasubjectFood Security
cg.iitasubjectGrain Legumes
cg.iitasubjectPlant Genetic Resources
cg.journalInternational Journal of Genomics
cg.notesOpen Access Journal
cg.accessibilitystatusOpen Access
cg.reviewstatusPeer Review
cg.usagerightslicenseCreative Commons Attribution 4.0 (CC BY 0.0)
cg.targetaudienceScientists
cg.identifier.doihttps://doi.org/10.1155/2024/9912987
cg.iitaauthor.identifierPatrick Ongom: 0000-0002-5303-3602
cg.iitaauthor.identifierChristian Fatokun: 0000-0002-8428-7939
cg.iitaauthor.identifierAbou TOGOLA: 0000-0001-6155-8292
cg.iitaauthor.identifierOusmane Boukar: 0000-0003-0234-4264
cg.futureupdate.requiredNo
cg.identifier.issue9912987


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