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Haplotype-based genome-wide association study unveils stable genomic regions for grain yield in CIMMYT spring bread wheat

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Title Haplotype-based genome-wide association study unveils stable genomic regions for grain yield in CIMMYT spring bread wheat
 
Identifier https://hdl.handle.net/11529/10548504
 
Creator Sehgal, Deepmala
Mondal, Suchismita
Crespo Herrera, Leonardo Abdiel
Govindan, Velu
Juliana, Philomin
Huerta Espino, Julio
Shrestha, Sandesh
Poland, Jesse
Singh, Ravi
Dreisigacker, Susanne
 
Publisher CIMMYT Research Data & Software Repository Network
 
Description Genetic architecture of grain yield (GY) has been extensively investigated in wheat using genome wide association study (GWAS) approach. However, most studies have used small panel sizes in combination with large genotypic data, typical examples of the so-called ‘large p small n’ or ‘short-fat data’ problem. Further, use of bi-allelic SNPs accentuated ‘missing heritability’ issues and therefore reported markers had limited impact in wheat breeding. We performed haplotype-based GWAS using 519 haplotype blocks on seven large cohorts of advanced CIMMYT spring bread wheat lines comprising overall 6,333 genotypes. In addition, epistatic interactions among the genome-wide haplotypes were investigated, an important aspect which has not yet been fully explored in wheat GWAS in order to address the missing heritability. Our results unveiled the intricate genetic architecture of GY controlled by both main and epistatic effects. The importance of these results from practical applications in the CIMMYT breeding program is discussed.
 
Subject Agricultural Sciences
Agricultural research
Wheat
Triticum aestivum
Grain yield
Genome wide association study
GWAS
Haplotypes
SNPs
 
Language English
 
Date 2020
 
Contributor Shrestha, Rosemary
CGIAR Research Program on Wheat (WHEAT)
United States Agency for International Development (USAID)
Global Wheat Program (GWP)
 
Type Experimental data,
Genotypic data
Phenotypic data