By applying the millet grains as pathogen medium， we inoculated the 163 wheat germplasm accessions which widely cultivated currently. No immune or highly resistant wheat accessions were identified， while the resistance variations estimated by disease index （DI） were found following a normal distribution 13.28-83.33 in greenhouse and 10.27-73.89 in field， respectively. The correlation coefficient， based on the phenotype collected from greenhouse seedling assay and field trials was 0.79， supporting a high correlation on resistance at the seedling and adult stages. Furthermore， the genome-wide association study （GWAS） found significant SNPs distributed on all chromosomes of wheat， with enrichment on chromosome 2A with an interval from 725 Mb to 763 Mb. This was in keeping with the results of the bulked segregant analysis （BSA）， which revealed significant SNPs distributed from 730 Mb to 750 Mb on chromosome 2A. GWAS and BSA indicated a significant resistance locus， which resided from 730 Mb to 750 Mb on chromosome 2A and associated with fusarium crown rot （FCR） infection. This study can provide important reference for identifying resistant wheat materials and exploring FCR resistant loci in wheat.