Figure 3: Comparison of core and variable genomes.
From: The pangenome of an agronomically important crop plant Brassica oleracea
Core and variable gene properties, SNP density and difference between core and variable genes with respect to synonymous SNPs, nonsynonymous SNPs and nonsense SNPs. Variable genes are on average (a) shorter with (b) fewer exons and (c) lower SNP density. After correction for the number of instances of a gene, coding mean SNP density (Norm CD) of variable genes is higher than core genes, but the ranks of core genes are higher (U-test). When genes with at least one coding SNP are considered (Norm(>0) CD), variable genes also have higher mean SNP density and the ranks of variable genes are higher (U-test). (d) There is a difference in the number of SNPs between core and variable genes within all three groups Syn (synonymous), Nonsyn (nonsynonymous) and Nonsen (nonsense). (e) Nonsyn/Syn ratio for core and variable genes. Bars correspond to means. Error bars correspond to s.d. *P<0.001, U-test. The total number of genes considered n=61,379 (core, n=49,895; variable, n=11,484).
