Mapping QTLs for the tissue culture performance of rice mature embryo using indica-japonica recombinant inbred lines

Abstract The tissue culture performance is the determinant factor of genetic transformation in indica rice (Oryza sativa L.). Quantitative trait loci (QTLs) associated with the tissue culture performance of mature embryo were detected by 202 genetic markers and 190 recombinant inbred lines (RILs) derived from the cross between two rice varieties, 93-11 (indica) as female parent and Nipponbare (japonica) as male parent. A composite interval mapping (CIM) was used to identify the QTLs for the tissue culture performance. The tissue culture performance of rice mature embryo were evaluated by six parameters, embryogenic calli induction rate (ECR), callus subculture capability (CSC), plantlet regeneration rate (RR), average number of regenerated shoots per callus (NRS), green plantlet regeneration rate (GRR) and average number of regenerated green shoots per callus (NRGS). Nipponbare has better tissue culture response than 93-11 because all indicators were higher in Nipponbare except CSC. Four QTLs for ECR, five QTLs for CSC, three QTLs for RR, two QTLs for NRS, four QTLs for GRR and three QTLs for NRGS were detected. These putative QTLs associated with tissue culture performance were distributed on eight rice chromosomes. These results demonstrated the possibilities of improving the tissue culture performance of indica rice by marker assisted selection (MAS) with those desirable alleles of japonica rice. Keywords: mature embryo; quantitative trait loci (QTLs); rice; recombinant inbred lines (RILs); tissue culture performance. Abbreviations: CAPS-cleaved amplified polymorphic sequence; CIM-composite interval mapping; CSC-callus subculture capability; DH-doubled haploid; ECR-embryogenic calli induction rate; GRR-green plantlet regeneration rate; LOD-logarithm of odds; MAS-marker assisted selection; NRGS-average number of regenerated green shoots per callus; NRS-average number of regenerated shoots per callus; QTLs-quantitative trait loci; RILs-recombinant inbred lines; RR-plantlet regeneration rate; SSRsimple sequence repeats; STS-sequence-tagged site