GWAS revealed a novel resistance locus on chromosome 4D for the quarantine disease Karnal bunt in diverse wheat pre-breeding germplasm.

ABSTRACT: This study was initiated to identify genomic regions conferring resistance to Karnal Bunt (KB) disease in wheat through a genome-wide association study (GWAS) on a set of 179 pre-breeding lines (PBLs). A GWAS of 6,382 high-quality DArTseq SNPs revealed 15 significant SNPs (P-value <10^-3) on chromosomes 2D, 3B, 4D and 7B that were associated with KB resistance in individual years. In particular, two SNPs (chromosome 4D) had the maximum R² values: SNP 1114200 | F | 0-63:T > C at 1.571 cM and R² of 12.49% and SNP 1103052 | F | 0-61:C > A at 1.574 cM and R² of 9.02%. These two SNPs displayed strong linkage disequilibrium (LD). An in silico analysis of SNPs on chromosome 4D identified two candidate gene hits, TraesCS4D02G352200 (TaNox8; an NADPH oxida

SUBMITTER: Singh S 

PROVIDER: S-EPMC7138846 | biostudies-literature | 2020 Apr

REPOSITORIES: biostudies-literature