Fig. 4

Homologous alignments and carrot subgenome gene retention along corresponding orthologous grape chromosomes. Genomic paralogy and orthology information within and among genomes is displayed in five circles. The short lines forming the innermost barrel medic chromosome circles represent predicted genes. Each of the barrel medic and grape paralogous chromosomal regions has four orthologous copies in carrot. Each circle is formed by short vertical lines that denote homologous genes, which are coloured to indicate chromosome number in their respective source plant as shown in the colour scheme at the bottom. a Rates of retained genes in sliding windows of carrot homologous region group 1 (red) and homologous region group 2 (black); b rates of retained genes in sliding windows of carrot homologous region group 3 (green) and homologous region group 4 (blue); c differences between groups 1 and 2 (orange yellow) and groups 3 and 4 (lime) are displayed. Large patches of chromosomal segmental losses (yellow)