Identification of quantitative trait nucleotides and candidate genes for tuber yield and mosaic virus tolerance in an elite population of white guinea yam (Dioscorea rotundata) using genome-wide association scan

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cg.authorship.typesCGIAR and developing country instituteen_US
cg.contributor.affiliationInternational Institute of Tropical Agricultureen_US
cg.contributor.affiliationSierra Leone Agricultural Research Instituteen_US
cg.contributor.crpRoots, Tubers and Bananasen_US
cg.contributor.donorBill & Melinda Gates Foundationen_US
cg.coverage.countryNigeriaen_US
cg.coverage.iso3166-alpha2NGen_US
cg.coverage.regionAfricaen_US
cg.coverage.regionWestern Africaen_US
cg.creator.identifierPaterne AGRE: 0000-0003-1231-2530en_US
cg.creator.identifierRobert Asiedu: 0000-0001-8943-2376en_US
cg.creator.identifierAsrat Asfaw: 0000-0002-4859-0631en_US
cg.howPublishedFormally Publisheden_US
cg.identifier.doihttps://doi.org/10.1186/s12870-021-03314-wen_US
cg.identifier.iitathemeBIOTECH & PLANT BREEDINGen_US
cg.isijournalISI Journalen_US
cg.issn1471-2229en_US
cg.issue1: 552en_US
cg.journalBMC Plant Biologyen_US
cg.reviewStatusPeer Reviewen_US
cg.subject.iitaAGRONOMYen_US
cg.subject.iitaFOOD SECURITYen_US
cg.subject.iitaPLANT BREEDINGen_US
cg.subject.iitaPLANT PRODUCTIONen_US
cg.subject.iitaYAMen_US
cg.subject.impactAreaNutrition, health and food securityen_US
cg.subject.sdgSDG 2 - Zero hungeren_US
cg.volume21en_US
dc.contributor.authorAgre, A.P.en_US
dc.contributor.authorNorman, P.E.en_US
dc.contributor.authorAsiedu, R.en_US
dc.contributor.authorAsfaw, A.en_US
dc.date.accessioned2022-01-25T11:43:27Zen_US
dc.date.available2022-01-25T11:43:27Zen_US
dc.identifier.urihttps://hdl.handle.net/10568/117738en_US
dc.titleIdentification of quantitative trait nucleotides and candidate genes for tuber yield and mosaic virus tolerance in an elite population of white guinea yam (Dioscorea rotundata) using genome-wide association scanen_US
dcterms.abstractBackground Improvement of tuber yield and tolerance to viruses are priority objectives in white Guinea yam breeding programs. However, phenotypic selection for these traits is quite challenging due to phenotypic plasticity and cumbersome screening of phenotypic-induced variations. This study assessed quantitative trait nucleotides (QTNs) and the underlying candidate genes related to tuber yield per plant (TYP) and yam mosaic virus (YMV) tolerance in a panel of 406 white Guinea yam (Dioscorea rotundata) breeding lines using a genome-wide association study (GWAS). Results Population structure analysis using 5,581 SNPs differentiated the 406 genotypes into seven distinct sub-groups based delta K. Marker-trait association (MTA) analysis using the multi-locus linear model (mrMLM) identified seventeen QTN regions significant for TYP and five for YMV with various effects. The seveteen QTNs were detected on nine chromosomes, while the five QTNs were identified on five chromosomes. We identified variants responsible for predicting higher yield and low virus severity scores in the breeding panel through the marker-effect prediction. Gene annotation for the significant SNP loci identified several essential putative genes associated with the growth and development of tuber yield and those that code for tolerance to mosaic virus. Conclusion Application of different multi-locus models of GWAS identified 22 QTNs. Our results provide valuable insight for marker validation and deployment for tuber yield and mosaic virus tolerance in white yam breeding. The information on SNP variants and genes from the present study would fast-track the application of genomics-informed selection decisions in breeding white Guinea yam for rapid introgression of the targeted traits through markers validation.en_US
dcterms.accessRightsOpen Accessen_US
dcterms.audienceScientistsen_US
dcterms.available2021-11-22en_US
dcterms.bibliographicCitationAgre, A.P., Norman, P.E., Asiedu, R. & Asfaw, A. (2021). Identification of quantitative trait nucleotides and candidate genes for tuber yield and mosaic virus tolerance in an elite population of white guinea yam (Dioscorea rotundata) using genome-wide association scan. BMC Plant Biology, 21(1), 1-16.en_US
dcterms.extent1-16en_US
dcterms.issued2021-12en_US
dcterms.languageenen_US
dcterms.licenseCC-BY-4.0en_US
dcterms.publisherSpringeren_US
dcterms.subjectgenetic diversityen_US
dcterms.subjectpopulation structureen_US
dcterms.subjectyamsen_US
dcterms.subjectvarietiesen_US
dcterms.subjectnigeriaen_US
dcterms.subjectquantitative trait locien_US
dcterms.typeJournal Articleen_US

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