Whole-Genome Sequencing Revealed a Late-Maturing Isogenic Rice Koshihikari Integrated with Hd16 Gene Derived from an Ise Shrine Mutant

Figure 4

Whole-genome sequencing of late-maturing isogenic Koshihikari (BC₄F₂) by next-generation sequencer. Almost the whole sequence was substituted by Koshihikari (black): a large portion of the 12 rice chromosomes were substituted to the DNA sequence derived from Koshihikari (black), except for the block around the 33 Mb region in the long arm on chromosome 3 (red arrow) after continuous backcross targeting late-maturing gene. Namely, SNPs derived from Isehikari were concentrated and remained around the 33 Mb region of chromosome 3, which also showed a linkage relation with SSR markers (Figure 1). Polymorphisms among [Koshihikari Hd16] and [Koshihikari] contained SNPs and 23.5% Indel.