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    Genome-wide association analysis reveals new insights into the genetic architecture of defensive, agro-morphological and quality-related traits in cassava

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    Journal Article (11.01Mb)
    Date
    2020
    Author
    Rabbi, I.Y.
    Kayondo, S.I.
    Bauchet, G.
    Yusuf, M.
    Aghogho, C.I.
    Ogunpaimo, K.
    Uwugiaren, R.
    Smith, I.A.
    Peteti, P.
    Agbona, A.
    Parkes, E.
    Ezenwaka, L.
    Wolfe, M.
    Jannink, J.L.
    Egesi, C.
    Kulakow, P.
    Type
    Journal Article
    Review Status
    Peer Review
    Target Audience
    Scientists
    Metadata
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    Abstract/Description
    Cassava (Manihot esculenta) is one of the most important starchy root crops in the tropics due to its adaptation to marginal environments. Genetic progress in this clonally propagated crop can be accelerated through the discovery of markers and candidate genes that could be used in cassava breeding programs. We carried out a genome-wide association study (GWAS) using a panel of 5,310 clones developed at the International Institute of Tropical Agriculture - Nigeria. The population was genotyped at more than 100,000 SNP markers via genotyping-by-sequencing (GBS). Genomic regions underlying genetic variation for 14 traits classified broadly into four categories: biotic stress (cassava mosaic disease and cassava green mite severity); quality (dry matter content and carotenoid content) and plant agronomy (harvest index and plant type). We also included several agro-morphological traits related to leaves, stems and roots with high heritability. In total, 41 significant associations were uncovered. While some of the identified loci matched with those previously reported, we present additional association signals for the traits. We provide a catalogue of favourable alleles at the most significant SNP for each trait-locus combination and candidate genes occurring within the GWAS hits. These resources provide a foundation for the development of markers that could be used in cassava breeding programs and candidate genes for functional validation.
    https://dx.doi.org/10.1007/s11103-020-01038-3
    Multi standard citation
    Permanent link to this item
    https://hdl.handle.net/20.500.12478/7014
    IITA Authors ORCID
    Ismail Rabbihttps://orcid.org/0000-0001-9966-2941
    Kayondo Siraj Ismailhttps://orcid.org/0000-0002-3212-5727
    Prasad Petetihttps://orcid.org/0000-0002-6013-8947
    E J Parkeshttps://orcid.org/0000-0003-4063-1483
    Jean-Luc Janninkhttps://orcid.org/0000-0003-4849-628X
    Chiedozie Egesihttps://orcid.org/0000-0002-9063-2727
    Peter Kulakowhttps://orcid.org/0000-0002-7574-2645
    Digital Object Identifier (DOI)
    https://dx.doi.org/10.1007/s11103-020-01038-3
    Research Themes
    Biometrics; Biotech and Plant Breeding; Plant Production and Health
    IITA Subjects
    Agronomy; Cassava; Disease Control; Food Security; Genetic Improvement; Plant Breeding; Plant Diseases; Plant Genetic Resources; Plant Production
    Agrovoc Terms
    Cassava; Breeding; Genomes; Pest Resistance; Disease Resistance; Morphology; Genotypes; Plant Diseases
    Regions
    Africa; West Africa
    Countries
    Nigeria
    Hubs
    Headquarters and Western Africa Hub
    Journals
    Plant Molecular Biology
    Collections
    • Journal and Journal Articles4835
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