Fig. 3: OrthoSweeps between wheat and barley.

a, For each of the four crops (HV, DEW, DW and BW), non-redundant sets of OGs with z_c above the 95th percentile in any population (and any subgenome in the case of wheats) were extracted, and intersections of these sets were plotted in a Venn diagram. The numbers indicate the counts of unique OGs found in the corresponding fractions. b, Intersections of the four sets (HV, DW, DEW and BW on the Venn diagram to the left) generally contain more OGs than would be expected by chance. The expected number of OGs was calculated as \(\text{11,925}\times {\prod }_{i=1}^{n}\frac{{o}_{i}}{\text{11,925}}\), where o_i is the observed number of OGs above the 95th percentile in the ith set. Intersections of two sets are associated with false discovery rate (FDR), the exact hypergeometric probability with normal approximation, adjusted by the Benjamini–Hochberg method. NA, not available. c, A Circos plot showing the z_c statistics for selected populations of HV, DW, DEW and BW. OGs were located on barley chromosomes according to the coordinates of the barley orthogenes. For polyploid wheats, the maximum values for the two and three subgenomes were plotted. The highlights encircling the chromosomes indicate OGs above the 95th percentile in two (yellow), three (orange) or all four populations (red) indicated at the centre. d, A Venn diagram showing the numbers of OGs with z_c above the 95th percentile in the A and B subgenomes of tetraploid wheat (means of all populations shown). e, A Venn diagram showing the numbers of orthogenes with z_c above the 95th percentile in the A, B and D subgenomes of hexaploid wheat (means of all populations shown).