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

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    U18ArtKayondoGenomewideInthomDev.pdf (1.722Mb)
    Date
    2018
    Author
    Kayondo, S.I.
    Carpio, D.P. del
    Lozano, R.
    Ozimati, A.A.
    Wolfe, M.
    Baguma, Yona K.
    Gracen, V.
    Offei, S.
    Ferguson, M.
    Kawuki, R.
    Jannink, Jean-Luc
    Type
    Journal Article
    Target Audience
    Scientists
    Metadata
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    Abstract/Description
    Cassava (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.
    http://dx.doi.org/10.1038/s41598-018-19696-1
    Multi standard citation
    Permanent link to this item
    https://hdl.handle.net/20.500.12478/2748
    Non-IITA Authors ORCID
    Morag Fergusonhttps://orcid.org/0000-0002-7763-5173
    Jean-Luc Janninkhttps://orcid.org/0000-0003-4849-628X
    Digital Object Identifier (DOI)
    http://dx.doi.org/10.1038/s41598-018-19696-1
    Research Themes
    BIOTECH & PLANT BREEDING
    IITA Subjects
    Cassava; Genetic Improvement; Plant Breeding; Plant Diseases; Plant Genetic Resources; Plant Production
    Agrovoc Terms
    Cassava; Manihot Esculenta; Food Security; Quantitative Trait Loci; Genome; Genomic Selection; Cassava Breeding; Cassava Brown Streak Disease
    Regions
    Africa; East Africa
    Countries
    Uganda
    Journals
    Scientific Reports
    Collections
    • Journal and Journal Articles4835
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