Mining and functional study of pathogenic genes of Fusarium oxysporum f.sp.cubense based on genome-wide association analysis
[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 patho-genicity of 299 tested strains of F.oxysporum f.sp.cubense was grouped accrording to quantity traits and quality traits.Using the Gemma software,which employed a mixed linear model,a genome-wide association study(GWAS)was carried out to perform an association analysis between the pathogenic phenotype of F.oxysporum f.sp.cubense and the genome-wide 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 and 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 and FocGhf12 genes and their func-tions were predicted.The results revealed that the full-length cDNA coding region of FocScp gene was 948 bp,and en-coded 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,en-coding 433 amino acid residues with size of about 49.17 kD,with subcellular localization in the nucleus,and was pre-dicted to be a transcription factor containing 3 zinc finger domains.The full-length cDNA coding region ofFocGhf12 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 and FocGhf12)of A oxysporum f.sp.cubense are obtained by GWAS,and their encodesd proteins are secretory protein,transcription factor and structural protein.
Fusarium oxysporum f.sp.cubensepathogenicity related genesgenome-wide association study(GWAS)bioinformatics analysis
万方数据
维普
