Multiple QTL mapping in autopolyploids: A random-effect model approach with application in a hexaploid sweetpotato full-sib population

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cg.authorship.typesCGIAR and advanced research instituteen
cg.contributor.affiliationInternational Potato Centeren
cg.contributor.affiliationNorth Carolina State Universityen
cg.contributor.affiliationUniversity of Tennesseeen
cg.contributor.affiliationMichigan State Universityen
cg.contributor.affiliationCornell Universityen
cg.contributor.crpRoots, Tubers and Bananas
cg.contributor.donorBill & Melinda Gates Foundationen
cg.coverage.regionAfrica
cg.editionGeneticsen
cg.identifier.doihttps://doi.org/10.1534/genetics.120.303080en
cg.isijournalISI Journalen
cg.issn1943-2631en
cg.issue3en
cg.journalGeneticsen
cg.subject.cipBREEDINGen
cg.subject.cipGENETIC RESOURCESen
cg.subject.cipGENETICS, GENOMICS AND CROP IMPROVEMENT SCIENCES GGCIen
cg.subject.cipSWEETPOTATOESen
cg.subject.cipSWEETPOTATO AGRI-FOOD SYSTEMSen
cg.volume215en
dc.contributor.authorSilva Pereira, G. daen
dc.contributor.authorGemenet, D.en
dc.contributor.authorMollinari, M.en
dc.contributor.authorOlukolu, B.A.en
dc.contributor.authorWood, J.C.en
dc.contributor.authorDíaz, F.en
dc.contributor.authorMosquera, V.en
dc.contributor.authorGrüneberg, W.J.en
dc.contributor.authorBuell, R.en
dc.contributor.authorYencho, George Craigen
dc.contributor.authorZeng, Z.B.en
dc.date.accessioned2020-06-16T22:42:16Zen
dc.date.available2020-06-16T22:42:16Zen
dc.identifier.urihttps://hdl.handle.net/10568/108494
dc.titleMultiple QTL mapping in autopolyploids: A random-effect model approach with application in a hexaploid sweetpotato full-sib populationen
dcterms.abstractIn developing countries, the sweetpotato, Ipomoea batatas (L.) Lam. (2n = 6x = 90), is an important autopolyploid species, both socially and economically. However, quantitative trait loci (QTL) mapping has remained limited due to its genetic complexity. Current fixed-effect models can only fit a single QTL and are generally hard to interpret. Here we report the use of a random-effect model approach to map multiple QTL based on score statistics in a sweetpotato bi-parental population ('Beauregard' × 'Tanzania') with 315 full-sibs. Phenotypic data were collected for eight yield component traits in six environments in Peru, and jointly adjusted means were obtained using mixed-effect models. An integrated linkage map consisting of 30,684 markers distributed along 15 linkage groups (LGs) was used to obtain the genotype conditional probabilities of putative QTL at every centiMorgan position. Multiple interval mapping was performed using our R package QTLpoly and detected a total of 13 QTL, ranging from none to four QTL per trait, which explained up to 55% of the total variance. Some regions, such as those on LGs 3 and 15, were consistently detected among root number and yield traits and provided basis for candidate gene search. In addition, some QTL were found to affect commercial and noncommercial root traits distinctly. Further best linear unbiased predictions were decomposed into the additive allele effects and were used to compute multiple QTL-based breeding values for selection. Together with quantitative genotyping and its appropriate usage in linkage analyses, this QTL mapping methodology will facilitate the use of genomic tools in sweetpotato breeding as well as in other autopolyploids.en
dcterms.accessRightsOpen Access
dcterms.audienceScientistsen
dcterms.audienceCGIARen
dcterms.available2020-07-01
dcterms.bibliographicCitationDa Silva Pereira, G.; Gemenet, D.; Mollinari, M.; Olukolu, B.A.; Wood, J.C.; Diaz, F.; Mosquera, V.; Gruneberg, W.J.; Khan, A.; Buell, R.; Yencho, G.C.; Zeng, Z.B. 2020. Multiple QTL mapping in autopolyploids: A random-effect model approach with application in a hexaploid sweetpotato full-sib population Genetics. ISSN 1943-2631. Published online 05May2020en
dcterms.extentpp. 579-595en
dcterms.issued2020-07-01
dcterms.languageen
dcterms.licenseCC-BY-4.0
dcterms.publisherOxford University Pressen
dcterms.subjectsweet potatoesen
dcterms.subjectquantitative trait locien
dcterms.subjectpolyploidyen
dcterms.subjecthexaploidyen
dcterms.subjectyield componentsen
dcterms.subjectheritabilityen
dcterms.typeJournal Article

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