Abstract: 【Objective】In-depth exploration of the pathogenicity related genes in Fusarium oxysporum f. sp. cubense， and analysis of their genetic characteristics were conducted to laid foundation for the breeding of banana varieties resistant to fusarium wilt，as well as the development of new drug targets.【Method】Based on the genetic backgrounds，the pathogenicity of 299 tested strains of F. oxysporum f. sp. cubenseF. oxysporum f. sp. cubense and the genomewide resequencing data. Additionally，ProtParam，SingleIP and SAMRT online software tools were utilized to analyze the physicochemical properties and primary structure of candidate genes.【Result】Using GWAS，a total of 151 pathogenicity related single nucleotide polymorphism（SNP）loci were associated. It was preliminarily determined that 3 different types of genes FocScp、FocChp和FocGhf12 were closely related to the pathogenicity of F. oxysporum f. sp. cubense. Further bioinformatics analysis was performed on the encoded proteins of FocScp、FocChp和FocGhf12 genes and their functions were predicted. The results revealed that the full-length cDNA coding region of FocScp gene was 948 bp，and encoded 314 amino acid residues with size of about 33.27 kD and contained an N-terminal signal peptide，which was predicted to be an extracellular secretory protein. The full-length cDNA coding region of FocChp gene was 1302 bp，encoding 433 amino acid residues with size of about 49.17 kD，with subcellular localization in the nucleus，and was predicted to be a transcription factor containing 3 zinc finger domains. The full-length cDNA coding region of FocGhf12 gene was 1533 bp，encoding 480 amino acid residues with size of about 53.54 kD. The protein had transmembrane domain， GPI modification sites，and subcellular localization outside the cell. It was predicted to be a glycoside hydrolase family 12 protein.【Conclusion】Three pathogenicity related genes（FocScp、FocChp和FocGhf12）of F. oxysporum f. sp. cubense are obtained by GWAS，and their encodesd proteins are secretory protein，transcription factor and structural protein.