Identification of diagnostic KASP-SNP markers for routine breeding activities in yam (Dioscorea spp.)

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dc.creatorAgre, A.P.
dc.creatorClark, L.V.
dc.creatorGarcia-Oliveira, A.L.
dc.creatorBohar, R.
dc.creatorAdebola, P.O.
dc.creatorAsiedu, R.
dc.creatorTerauchi, R.
dc.creatorAsfaw, A.
dc.date2024-06
dc.date2024-01-09T13:39:41Z
dc.date2024-01-09T13:39:41Z
dc.date.accessioned2026-06-27T16:01:10Z
dc.descriptionMaintaining genetic purity and true-to-type clone identification are important action steps in breeding programs. This study aimed to develop a universal set of kompetitive allele-specific polymerase chain reaction (KASP)-based single nucleotide polymorphism (SNP) markers for routine breeding activities. Ultra-low-density SNP markers were created using an initial set of 173,675 SNPs that were obtained from whole-genome resequencing of 333 diverse white Guinea yam (Dioscorea rotundata Poir) genotypes. From whole-genome resequencing data, 99 putative SNP markers were found and successfully converted to high-throughput KASP genotyping assays. The markers set was validated on 374 genotypes representing six yam species. Out of the 99 markers, 50 were highly polymorphic across the species and could distinguish different yam species and pedigree origins. The selected SNP markers classified the validation population based on the different yam species and identified potential duplicates within yam species. Through penalized analysis, the male parent of progenies involved in polycrosses was successfully predicted and validated. Our research was a trailblazer in validating KASP-based SNP assays for species identification, parental fingerprinting, and quality control (QC) and quality assurance (QA) in yam breeding programs.
dc.formatapplication/pdf
dc.identifierhttps://hdl.handle.net/10568/137393
dc.identifier.urihttp://hdl.handle.net/123456789/120193
dc.languageen
dc.publisherWiley
dc.rightsOpen Access
dc.sourceAgre, A.P., Clark, L.V., Garcia‐Oliveira, A.L., Bohar, R., Adebola, P.O., Asiedu, R., ... & Asfaw, A. (2024). Identification of diagnostic KASP‐SNP markers for routine breeding activities in yam (Dioscorea spp.). Plant Genome, e20419, 1-11.
dc.subjectyams
dc.subjectbreeding
dc.subjectsingle nucleotide polymorphism
dc.subjectgenetic markers
dc.titleIdentification of diagnostic KASP-SNP markers for routine breeding activities in yam (Dioscorea spp.)
dc.typeJournal Article

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Instituto Internacional de Agricultura Tropical (IITA)