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Genome-wide association study in Asia-adapted tropical maize reveals novel and explored genomic regions for sorghum downy mildew resistance

Author: Rashid, Z.
Author: Kumar Singh, P.
Author: Vemuri, H.
Author: Zaidi, P.H.
Author: Prasanna, B.M.
Author: Nair, S.K.
Year: 2017
URI: http://hdl.handle.net/10883/19185
Abstract: Globally, downy mildews are among the important foliar diseases of maize that cause significant yield losses. We conducted a genome-wide association study for sorghum downy mildew (SDM; Peronosclerospora sorghi) resistance in a panel of 368 inbred lines adapted to the Asian tropics. High density SNPs from Genotyping-by-sequencing were used in GWAS after controlling for population structure and kinship in the panel using a single locus mixed model. The study identified a set of 26 SNPs that were significantly associated with SDM resistance, with Bonferroni corrected P values ≤ 0.05. Among all the identified SNPs, the minor alleles were found to be favorable to SDM resistance in the mapping panel. Trend regression analysis with 16 independent genetic variants including 12 SNPs and four haplotype blocks identified SNP S2_6154311 on chromosome 2 with P value 2.61E-24 and contributing 26.7% of the phenotypic variation. Six of the SNPs/haplotypes were within the same chromosomal bins as the QTLs for SDM resistance mapped in previous studies. Apart from this, eight novel genomic regions for SDM resistance were identified in this study; they need further validation before being applied in the breeding pipeline. Ten SNPs identified in this study were co-located in reported mildew resistance genes.
Format: PDF
Language: English
Publisher: Nature Publishing Group
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Type: Article
Place of Publication: London
Issue: art. 366
Volume: 8
Project: FP3 - Stress resilient and nutritious maize
DOI: 10.1038/s41598-017-18690-3
CRP: Maize
Country of Focus: SAHARAN AFRICA
Country of Focus: SOUTH ASIA
Country of Focus: SOUTHEAST ASIA
Country of Focus: LATIN AMERICA
Agrovoc: MAIZE
Agrovoc: GENOMES
Agrovoc: SINGLE NUCLEOTIDE POLYMORPHISM
Agrovoc: TROPICAL ZONES
Agrovoc: DISEASE RESISTANCE
Related Datasets: https://static-content.springer.com/esm/art%3A10.1038%2Fs41598-017-18690-3/MediaObjects/41598_2017_18690_MOESM1_ESM.doc
Journal: Scientific Reports
Related Software: http://hdl.handle.net/11529/10201


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

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