Gene densities and dominance of gene expression in the three subgenomes of <i>B. rapa</i> along the chromosomes of <i>A. thaliana</i>.

<p>The vertical grey lines are the separators of the 24 AK blocks. Red lines and crosses represent subgenome LF, while green and blue ones represent subgenomes MF1 and MF2, respectively. Gene densities are indicated above the lines and dominance of gene expression below. Gene densities were estimated by a window of 1,000 genes with a step of 1 gene moving through the reference genome <i>A. thaliana</i>. The ratio of syntenic genes in each of the three <i>B. rapa</i> subgenomes for each window was calculated and plotted. For the gene expression, we used a window of 60 genes with a step of 1 gene sliding through the 1,675 <i>A. thaliana</i> genes that have three retained syntenic orthologs in <i>B. rapa</i>. For each window, we counted the number of genes that have the highest expression among syntenic paralogs for each of the three subgenomes. The expression dominance was then plotted as crossed with the ratio of the highest expressed genes in each subgenome.