Fig 1.
Six distinct sorghum sub-population distributions predicted by optimal fastSTRUCTURE grouping.
fastSTRUCTURE mapping of the genetic structure of 75 sorghum accessions with optimized K = 6. The six sub-populations are depicted by: dark blue, green, red, purple, orange, and light blue representing bicolor, caudatum, durra, guinea, kafir, and margaritiferum respectively. The x-axis represents each accession and the y-axis represents the proportion of the genetic structure from the sorghum sub-populations.
Fig 2.
Split network divides sorghum into six clades.
Split network diagram from SplitsTree4 depicting the genetic separation of 75 sorghum accessions. Splits-identified genetic divergence between accessions. Colors indicate the clade each accession belongs to. Dark blue, green, red, purple, orange, and light blue represent bicolor, caudatum, durra, guinea, kafir, and margaritiferum, respectively. Each node is labeled with the accession it represents. The scale bar is representative of a weight of 0.01 of the corresponding split.
Fig 3.
Venn diagram of de novo SSRs shows distinct SSRs for each clade.
SSRs that are specific to only one clade in the merged VCF file are depicted by sections with no overlapping colors. SSRs that are shared by different clades are depicted within overlapping sectors. The SSRs that were identified in the Sorghum bicolor reference genome but had no reference or alternative alleles in the accessions evaluated by this study are denoted in the top left corner. The colored Venn regions are labeled with the sub-population they depict. Dark blue, green, red, purple, orange, and light blue represent bicolor (n = 4), caudatum (n = 29), durra (n = 19), guinea (n = 3), kafir (n = 16), and margaritiferum (n = 4), respectively.
Fig 4.
Chromosomal map of the six SSRs specific to margaritiferum.
The ten chromosomes of Sorghum bicolor are represented in sequential order and labeled with the chromosome number above each. The bar on the left of each set of five chromosomes depicts the length in millions of bases (Mb). The black circles indicate centromeric regions. Each SSR is named and marked at its location on the chromosome.
Table 1.
NGS-validated primer sites and sequence lengths of margaritiferum-specific SSRs (Xgma1—Xgma6), based on the data set analyzed.