Development of SNP markers for grain yield screening of Brazilian rice cultivars

Abstract

The objective of this work was to identify and validate single-nucleotide polymorphism (SNP) markers related to grain yield in rice (Oryza sativa) core collection. The genome-wide association studies (GWAS) methodology was applied for genotyping of 541 rice accessions by 167,470 SNPs. The grain yield of these accessions was estimated through the joint analysis of nine field experiments carried out in six Brazilian states. Fifteen SNPs were significantly associated with grain yield, and out of the ten SNPs converted to TaqMan assays, four discriminated the most productive accessions. These markers were used for the screening of rice accessions with favorable alleles. The selected accessions were, then, evaluated in field experiments in target environments, in order to select the most productive ones. This screening reduces the number of accessions evaluated experimentally, making it possible to prioritize those with higher productive potential, which allows of the increase of the number of replicates and, consequently, of the experimental accuracy.

Toward Integrated Multi-Omics Intervention: Rice Trait Improvement and Stress Management

“…GWAS was used for genotyping of 541 rice accessions by 167470 SNPs. The study concluded 15 SNPs to be significantly related to grain yield (Pantalião et al, 2020). Additionally, trait-linked simple sequence repeat (SSR) markers were deployed to study an important rice agronomic trait-aroma (Jasim Aljumaili et al, 2018).…”