Dissecting the genetic architecture of sunflower head diameter using genome-wide association study

Abstract

Sunflower (Helianthus annuus L.) plays an essential role in meeting the edible oil demand worldwide. Sunflower seed yield can be decomposed into several yield component traits, one of which is the head diameter. In 2019, 2020, and 2022, we evaluated the head diameter phenotypic variation on a set of diverse sunflower accessions (N=342) in replicated field trials. By combining three years of field data, the broad sense heritability (H2) of the head diameter trait was estimated to be 0.88. Then, a subset of N=274 accessions was genotyped by using the tunable genotyping-by-sequencing (tGBS) method, resulting in 226,779 high-quality SNPs. With these SNPs and the head diameter phenotype, the genome-wide association study (GWAS) was conducted using two statistical approaches: 1) the mixed linear model (MLM) and 2) the fixed and random model circulating probability unification (farmCPU). The MLM and farmCPU GWAS approaches identified 106 and 8 significant SNPs that were placed close to 53 and 21 genes, respectively. Two significant peaks were identified in MLM, with a strong signal on chromosome 10 and a less strong signal on chromosome 16. The farmCPU method detected the same signals on chromosomes 10 and 16 and several additional significant signals on other chromosomes. The head diameter associated genetic loci and the underlying candidate genes can be leveraged for further functional validation and serve as a basis for sunflower oil yield improvement.