SSR Analysis on Nuclear Genome of Isonuclear Alloplasmic Male Sterile Lines and Their Maintainer Lines in Rice (Oryza sativa)

Four sets of rice isonuclear alloplasmic lines,including 15 male sterile lines and their maintainer lines were analyzed by using 42 SSR markers,which were randomly selected from 12 chromosomes of rice.A total of 63 alleles were detected in the 15 lines.The frequency of polymorphic loci was 40.48%,the average number of alleles per locus was 1.5,and the average gene diversity was 0.18.Four sets of the isonuclear alloplasmic male sterile lines shared 54.5 identical loci,corresponding to 86.51% of the total alleles;and meanwhile,there were 8.5 different loci between them,it was equal to 13.49%.Average 77.78% identical loci and 22.22% different loci were detected between the isonuclear alloplasmic male sterile lines and their maintainer lines.Similarly,average 53.97% identical loci and 46.03% different loci were existed among the homogenous allonucleus male sterile lines.The SSR fingerprints for some male sterile lines and maintainer lines were established.Based on the cluster analysis,the 15 lines could be divided into three groups at the 0.22 of the genetic distance.The first group consists of eight lines including the male sterile lines and their maintainer lines of Huanong A and Huayu A.The second group consists of three sterile lines of Kezhen 2A,including N9A,N10A and N11A.The third group includes four isonuclear alloplasmic lines of Zhenshan 97A,i.e.,N12A,N13A,N14A and N12-16B.The isonuclear alloplasmic lines of the same sets are mostly clustered in the same group,which is consistent with their pedigrees.