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Genome-wide association analysis for tuber dry matter and oxidative browning in water yam (Dioscorea alata L.)

dc.contributor.authorGatarira, C.
dc.contributor.authorAgre, P.
dc.contributor.authorMatsumoto, R.
dc.contributor.authorEdemodu, A.
dc.contributor.authorAdetimirin, V.
dc.contributor.authorBhattacharjee, R.
dc.contributor.authorAsiedu, R.
dc.contributor.authorAsfaw, A.
dc.date.accessioned2021-01-29T11:47:57Z
dc.date.available2021-01-29T11:47:57Z
dc.date.issued2020
dc.identifier.citationGatarira, C., Agre, P., Matsumoto, R., Edemodu, A., Adetimirin, V., Bhattacharjee, R., ... & Asfaw, A. (2020). Genome-wide association analysis for tuber dry matter and oxidative browning in water yam (Dioscorea alata L.). Plants, 9(8), 969: 1-19.
dc.identifier.issn2223-7747
dc.identifier.urihttps://hdl.handle.net/20.500.12478/7024
dc.description.abstractYam (Dioscorea spp.) is a nutritional and medicinal staple tuber crop grown in the tropics and sub-tropics. Among the food yam species, water yam (Dioscorea alata L.) is the most widely distributed and cultivated species worldwide. Tuber dry matter content (DMC) and oxidative browning (OxB) are important quality attributes that determine cultivar acceptability in water yam. This study used a single nucleotide polymorphism (SNP) assay from a diversity arrays technology (DArT) platform for a genome-wide association study (GWAS) of the two quality traits in a panel of 100 water yam clones grown in three environments. The marker–trait association analysis identified significant SNPs associated with tuber DMC on chromosomes 6 and 19 and with OxB on chromosome 5. The significant SNPs cumulatively explained 45.87 and 12.74% of the total phenotypic variation for the tuber DMC and OxB, respectively. Gene annotation for the significant SNP loci identified important genes associated in the process of the proteolytic modification of carbohydrates in the dry matter accumulation pathway as well as fatty acid β-oxidation in peroxisome for enzymatic oxidation. Additional putative genes were also identified in the peak SNP sites for both tuber dry matter and enzymatic oxidation with unknown functions. The results of this study provide valuable insight for further dissection of the genetic architecture of tuber dry matter and enzymatic oxidation in water yam. They also highlight SNP variants and genes useful for genomics-informed selection decisions in the breeding process for improving food quality traits in water yam.
dc.description.sponsorshipBill & Melinda Gates Foundation
dc.format.extent1-19
dc.language.isoen
dc.subjectGenes
dc.subjectBibliographic Information
dc.subjectYams
dc.subjectDry Matter
dc.subjectTubers
dc.subjectQuality
dc.titleGenome-wide association analysis for tuber dry matter and oxidative browning in water yam (Dioscorea alata L.)
dc.typeJournal Article
cg.contributor.crpRoots, Tubers and Bananas
cg.contributor.affiliationInternational Institute of Tropical Agriculture
cg.contributor.affiliationUniversity of Ibadan
cg.coverage.regionAfrica
cg.coverage.regionWest Africa
cg.coverage.countryNigeria
cg.coverage.hubHeadquarters and Western Africa Hub
cg.researchthemeBiotech and Plant Breeding
cg.identifier.bibtexciteidGATARIRA:2020
cg.isijournalISI Journal
cg.authorship.typesCGIAR and developing country institute
cg.iitasubjectAgronomy
cg.iitasubjectFood Security
cg.iitasubjectGenetic Improvement
cg.iitasubjectPlant Breeding
cg.iitasubjectPlant Genetic Resources
cg.iitasubjectPlant Production
cg.iitasubjectYam
cg.journalPlants
cg.notesOpen Access Journal; Published online: 31 July 2020
cg.accessibilitystatusOpen Access
cg.reviewstatusPeer Review
cg.usagerightslicenseCreative Commons Attribution 4.0 (CC BY 0.0)
cg.targetaudienceScientists
cg.identifier.doihttps://dx.doi.org/10.3390/plants9080969
cg.iitaauthor.identifierPaterne AGRE: 0000-0003-1231-2530
cg.iitaauthor.identifierRyo Matsumoto: 0000-0002-0106-6728
cg.iitaauthor.identifierRanjana Bhattacharjee: 0000-0002-5184-5930
cg.iitaauthor.identifierRobert Asiedu: 0000-0001-8943-2376
cg.iitaauthor.identifierAsrat Asfaw: 0000-0002-4859-0631
cg.futureupdate.requiredNo


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