For developing molecular markers linked to white rust resistance in chrysanthemum, RAPD and AFLP were carried out in ‘Puma White’ x ‘Dancer’ mapping population through Bulked Segregant Analysis (BSA) methods. 10 resistant and 10 susceptible individuals were selected and bulked. And then, these bulks were screened using 280 RAPD primers (10 mer) with two parents. As a result of BSA-RAPD, 25 Dancer/R-bulk specific bands in 21 primers and 22 Puma White/S-bulk specific bands in 18 primers were selected. These resistant or susceptible specific bands were screened in 10 resistant and 10 susceptible individuals. Except OPI-13520, all bands were confirmed as false positive. OPI-13520 band presumed as closely linked marker to white rust disease resistance was tested in whole population. Among 187 progenies, just six off-springs did not correspond with phenotypic data. Based on expected phenotypic segregation ratios in the pseudo F1 progenies, it was assumed that a duplex type of white rust resistance in ‘Dancer’ (RRrrrr) were in combination with a duplex type of OPI-13520 marker. As a result of x2-test of independence between resistance gene and OPI-13520 marker, x2 score is 76.08 and probability is 2.13x10-16. And resistance gene and OPI-13520 marker were assumed to be linked in coupling phase. The value of recombination fraction obtained by successive trials and second derivative of log likelihood was 0.03832±0.0271.