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Genome-wide association mapping and genomic prediction for CBSD resistance in Manihot esculenta

dc.contributor.authorKayondo, S.I.
dc.contributor.authorCarpio, D.P. del
dc.contributor.authorLozano, R.
dc.contributor.authorOzimati, A.A.
dc.contributor.authorWolfe, M.
dc.contributor.authorBaguma, Yona K.
dc.contributor.authorGracen, V.
dc.contributor.authorOffei, S.
dc.contributor.authorFerguson, M.
dc.contributor.authorKawuki, R.
dc.contributor.authorJannink, Jean-Luc
dc.date.accessioned2019-12-04T11:14:23Z
dc.date.available2019-12-04T11:14:23Z
dc.date.issued2018
dc.identifier.citationKayondo, S.I., Del Carpio, D.P., Lozano, R., Ozimati, A., Wolfe, M., Baguma, Y., ... & Jannink, J.L. (2018). Genome-wide association mapping and genomic prediction for CBSD resistance in Manihot esculenta. Scientific Reports, 8(1), 1-12.
dc.identifier.issn2045-2322
dc.identifier.urihttps://hdl.handle.net/20.500.12478/2748
dc.descriptionOpen Access Journal; Published online: 24 Jan 2018
dc.description.abstractCassava (Manihot esculenta Crantz) is an important security crop that faces severe yield loses due to cassava brown streak disease (CBSD). Motivated by the slow progress of conventional breeding, genetic improvement of cassava is undergoing rapid change due to the implementation of quantitative trait loci mapping, Genome-wide association mapping (GWAS), and genomic selection (GS). In this study, two breeding panels were genotyped for SNP markers using genotyping by sequencing and phenotyped for foliar and CBSD root symptoms at five locations in Uganda. Our GWAS study found two regions associated to CBSD, one on chromosome 4 which co-localizes with a Manihot glaziovii introgression segment and one on chromosome 11, which contains a cluster of nucleotide-binding site-leucine-rich repeat (NBS-LRR) genes. We evaluated the potential of GS to improve CBSD resistance by assessing the accuracy of seven prediction models. Predictive accuracy values varied between CBSD foliar severity traits at 3 months after planting (MAP) (0.27–0.32), 6 MAP (0.40–0.42) and root severity (0.31–0.42). For all traits, Random Forest and reproducing kernel Hilbert spaces regression showed the highest predictive accuracies. Our results provide an insight into the genetics of CBSD resistance to guide CBSD marker-assisted breeding and highlight the potential of GS to improve cassava breeding.
dc.description.sponsorshipBill & Melinda Gates Foundation
dc.description.sponsorshipDepartment for International Development, United Kingdom
dc.format.extent1-12
dc.language.isoen
dc.subjectCassava
dc.subjectManihot Esculenta
dc.subjectFood Security
dc.subjectQuantitative Trait Loci
dc.subjectGenome
dc.subjectGenomic Selection
dc.subjectCassava Breeding
dc.subjectCassava Brown Streak Disease
dc.titleGenome-wide association mapping and genomic prediction for CBSD resistance in Manihot esculenta
dc.typeJournal Article
dc.description.versionPeer Review
cg.contributor.crpRoots, Tubers and Bananas
cg.contributor.affiliationNational Crops Resources Research Institute, Uganda
cg.contributor.affiliationUniversity of Ghana
cg.contributor.affiliationCornell University
cg.contributor.affiliationUnited States Department of Agriculture
cg.contributor.affiliationInternational Institute of Tropical Agriculture
cg.coverage.regionAfrica
cg.coverage.regionEast Africa
cg.coverage.countryUganda
cg.creator.identifierMorag Ferguson: 0000-0002-7763-5173
cg.creator.identifierJean-Luc Jannink: 0000-0003-4849-628X
cg.researchthemeBIOTECH & PLANT BREEDING
cg.isijournalISI Journal
cg.authorship.typesCGIAR and developing country institute
cg.iitasubjectCassava
cg.iitasubjectGenetic Improvement
cg.iitasubjectPlant Breeding
cg.iitasubjectPlant Diseases
cg.iitasubjectPlant Genetic Resources
cg.iitasubjectPlant Production
cg.journalScientific Reports
cg.howpublishedFormally Published
cg.accessibilitystatusOpen Access
local.dspaceid93756
cg.targetaudienceScientists
cg.identifier.doihttp://dx.doi.org/10.1038/s41598-018-19696-1


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