A molecular map based on an indica/indica recombinant inbred population and its comparison with an existing map derived from indica/japonica cross in rice.

With the eventual purpose of precisely locating quantitative trait loci (QTLs) in indica rice, a molecular linkage map was constructed based on an indica×indica derived recombinant inbred (RI) population consisting of 131 (F_(6:7)) lines. The map consists of 160 RFLP markers detected by 113 rice and 28 wheat probes and 78 AFLP markers revealed by five PstI/MseI primer combinations. The heterozygosity rate of the population was close to the expectation, indicating that the population had a normal genetic structure. Segregation distortion was observed in six chromosomal regions, suggesting that abnormal segregation could happen even in an intra-subspecies population. The map covers a length of 1435.8 cM, wich an average distance of 6.38 cM between adjacent markers. A set of RFLP landmarks generated by Japanese Rice Genome Program (RGP) was applied to allow comparison between our map and the RGP map.