Figure 9

VB-based mapping of hilum color-determining locus. (A) Hilum colors of the soybeans. (B) The three-step process for dVB-based locus mapping. The black sectors in the 1st and 2nd passes represent the dVBs. The vertical red arrows indicate the identified dVB that contains the hilum color-determining locus. The CHS genes are shown as red horizontal arrows. The other genes are shown as black bars. The numbers below the chromosome lanes represent the counts of the recombinants, whose hilum color does not match with its genotype as confirmed by indel markers. (C) Genome structure of I and putative HC loci. The sequence variations of Daepoong and Hwangkeum are indicated at the bottom lines. The vertical black bars and arrows represent a non-synonymous SNV of CHS9 in the I locus and a 5-bp deletion of the CHS3 promoter in the HC locus, respectively. A multiple sequence alignment shows the promoter region of the CHS3 gene. The five-base deletion position is indicated as a red box.