Polymorphism levels of some SSR markers (Simple Sequence Repeat) for parental line identification on low temperature tolerance

Abstract

Breeding rice varieties suitable for low temperature areas is very important to support food self-sufficiency. Identification of polymorphic markers assumed to be associated with low temperature tolerant properties is essential for mark-based selection applications in the context of low temperature tolerant rice variety development. The study was conducted to identify 5 rice genotypes to be used as a low temperature tolerant donor hybrid using 11 SSR markers. PCR product amplification was separated using 3% agarose gel and 8% electrophoresis polyacrylamide gel (PAGE). The level of information of a mark can be determined by calculating the Polymorphic Information Content (PIC). The study was conducted in May - July 2017 at the Laboratory of Molecular Biology, Centre for Research and Development of Biotechnology and Genetic Resources of Agriculture, Bogor. The results showed that 6 SSR markers were polymorphic and 5 markers were monomorphic. CT234 and CT235 markers have the highest PIC value (0.375) compared to 9 other markers. SSR markers and specific gene markers used to identify low temperature tolerant rice show that Ciherang and Sigambiri Putih crossbreeding can be recommended as a crossing parents because it has the most distant genetic (0.431).