Abstract A composite cross population was derived from the cross between (Yumian 1 × CRI 35) F1 and (Yumian 1 × Belshinuo) F1. A total of 6,565 primer pairs were used to screen the polymorphic primers between CRI 35, Yumian 1 and Belshinuo, and 92 polymorphic primer pairs were obtained. The polymorphic primer pairs were used to genotype the 172 individual plants of composite population and 96 loci were obtained. Four out of 92 primer pairs produced two loci. A genetic linkage map with 63 SSR loci and 19 linkage map was constructed, and the linkage map covered a whole length of 656 cM with an average interval of 10.41cM between two markers, accounting for 14.8% of the cotton genome. The yield traits of the 172 composite population F2 lines were used to detect QTL by multiple QTL mapping, and 7 QTL for five yield traits were identified, including one for boll number per plant (BN), two for boll weight (BW)，one for lint percentage (LP), one for seed cotton yield per plant (SC), and two for lint cotton yield per plant (LC). Seven QTL were mapped on four D-genome chromosomes, and four QTL were mapped on chromosome 19. It was found that the different parents have different QTL alleles of yield trait.
