1College of Horticulture，Anhui Agricultural University，Hefei 230036，Anhui，China；2Institute of Horticulture，Anhui Academy of Agricultural Sciences，Key Laboratory of Germplasm Creation and Utilisation of Horticultural Crops，Ministry of Agriculture and Rural Affairs，Key Laboratory of Genetic Improvement and Ecophysiology of Horticultural Crop，Hefei 230031，Anhui，China
Abstract：A Genome-wide association study（GWAS）is a population-level statistical analysis of genotype and observable traits（i.e.，phenotypes），which provides research ideas for revealing the genetic mechanisms of complex agronomic traits in crops by screening the genetic variants that can affect the trait through statistical quantities or P-values．At present，GWAS has been widely used in crop genetics and breeding．This paper mainly expounds the application progress of GWAS in the agronomic traits quality and resistance of pepper；explores and prospects the existing problems．In order to provide a theoretical basis and reference for the future use of GWAS for the genetic basis of pepper agronomic and quality traits as well as molecular marker-assisted breeding．
