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Genome-wide association studies in tropical maize germplasm reveal novel and known genomic regions for resistance to Northern corn leaf blight

Creator: Rashid, Z.
Creator: Sofi, M.
Creator: Harlapur, S.I.
Creator: Kachapur, R.M.
Creator: Dar, Z.A.
Creator: Singh, P.K.
Creator: Zaidi, P.H.
Creator: Vivek, B.
Creator: Nair, S.K.
Year: 2020
URI: https://hdl.handle.net/10883/21137
Language: English
Publisher: Nature Publishing Group
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Type: Article
Place of Publication: London (United Kingdom)
Volume: 10
DOI: 10.1038/s41598-020-78928-5
Description: Northern Corn Leaf Blight (NCLB) caused by Setosphaeria turcica, is one of the most important diseases of maize world-wide, and one of the major reasons behind yield losses in maize crop in Asia. In the present investigation, a high-resolution genome wide association study (GWAS) was conducted for NCLB resistance in three association mapping panels, predominantly consisting of tropical lines adapted to different agro-ecologies. These panels were phenotyped for disease severity across three locations with high disease prevalence in India. High density SNPs from Genotyping-by-sequencing were used in GWAS, after controlling for population structure and kinship matrices, based on single locus mixed linear model (MLM). Twenty-two SNPs were identified, that revealed a significant association with NCLB in the three mapping panels. Haplotype regression analysis revealed association of 17 significant haplotypes at FDR ≤ 0.05, with two common haplotypes across three maize panels. Several of the significantly associated SNPs/haplotypes were found to be co-located in chromosomal bins previously reported for major genes like Ht2, Ht3 and Htn1 and QTL for NCLB resistance and multiple foliar disease resistance. Phenotypic variance explained by these significant SNPs/haplotypes ranged from low to moderate, suggesting a breeding strategy of combining multiple resistance alleles towards resistance for NCLB.
Agrovoc: MAIZE
Agrovoc: DISEASE RESISTANCE
Agrovoc: GENETICS
Agrovoc: BLIGHT
Related Datasets: https://www.nature.com/articles/s41598-020-78928-5#Sec26
ISSN: 2045-2322
Journal: Nature Scientific Reports
Article number: 21949


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  • Maize
    Maize breeding, phytopathology, entomology, physiology, quality, and biotech

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