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    Genome-wide association analysis reveals genetic architecture and candidate genes associated with grain yield and other traits under low soil nitrogen in early-maturing white quality protein maize inbred lines

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    Journal Article (967.2Kb)
    Date
    2022
    Author
    Bhadmus, O.O.
    Badu-Apraku, B.
    Adeyemo, O.
    Agre, A.P.
    Queen, O.N.
    Ogunkanmi, L.A.
    Type
    Journal Article
    Review Status
    Peer Review
    Target Audience
    Scientists
    Metadata
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    Abstract/Description
    Maize production in the savannas of sub-Saharan Africa (SSA) is constrained by the low nitrogen in the soils. The identification of quantitative trait loci (QTL) conferring tolerance to low soil nitrogen (low-N) is crucial for the successful breeding of high-yielding QPM maize genotypes under low-N conditions. The objective of this study was to identify QTLs significantly associated with grain yield and other low-N tolerance-related traits under low-N. The phenotypic data of 140 early-maturing white quality protein maize (QPM) inbred lines were evaluated under low-N. The inbred lines were genotyped using 49,185 DArTseq markers, from which 7599 markers were filtered for population structure analysis and genome-wide association study (GWAS). The inbred lines were grouped into two major clusters based on the population structure analysis. The GWAS identified 24, 3, 10, and 3 significant SNPs respectively associated with grain yield, stay-green characteristic, and plant and ear aspects, under low-N. Sixteen SNP markers were physically located in proximity to 32 putative genes associated with grain yield, stay-green characteristic, and plant and ear aspects. The putative genes GRMZM2G127139, GRMZM5G848945, GRMZM2G031331, GRMZM2G003493, GRMZM2G067964, GRMZM2G180254, on chromosomes 1, 2, 8, and 10 were involved in cellular nitrogen assimilation and biosynthesis, normal plant growth and development, nitrogen assimilation, and disease resistance. Following the validation of the markers, the putative candidate genes and SNPs could be used as genomic markers for marker-assisted selection, to facilitate genetic gains for low-N tolerance in maize production.
    https://dx.doi.org/10.3390/genes13050826
    Multi standard citation
    Permanent link to this item
    https://hdl.handle.net/20.500.12478/7502
    IITA Authors ORCID
    BAFFOUR BADU-APRAKUhttps://orcid.org/0000-0003-0113-5487
    Paterne AGREhttps://orcid.org/0000-0003-1231-2530
    Digital Object Identifier (DOI)
    https://dx.doi.org/10.3390/genes13050826
    Research Themes
    Biotech and Plant Breeding
    IITA Subjects
    Agronomy; Food Security; Maize; Plant Breeding; Plant Production
    Agrovoc Terms
    Maize; Protein; Genes; Quantitative Trait Loci; Yields; Marker-Assisted Selection; Sub-Saharan Africa
    Regions
    Africa; West Africa
    Countries
    Nigeria
    Hubs
    Headquarters and Western Africa Hub
    Journals
    Genes
    Collections
    • Journal and Journal Articles4501
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