Fig. 1

Polymorphisms within the EC-1 lineage. The charts show the distribution of all predicted genes (grey bars) or genes showing polymorphisms within the EC-1 lineage (black bars) among different gene categories. a Percentage of RXLR effector genes, Crinkler (CRN) and CRN-like effector genes, other effector-like genes (including genes coding for small cysteine-rich proteins, protein inhibitors, hydrolases, etc.) and non-effector genes in the set of genes showing presence/absence polymorphisms between P13527 and P13626 compared to that in all the predicted genes. Genes encoding disease effectors are over-represented among the genes with presence/absence polymorphisms (one-tailed hypergeometric test, p = 3.9 × 10^− 5). b Percentage of genes located in Gene Sparse Regions (GSR), Gene Dense Regions (GDR), in between GSR and GDR, and with location not determined (ND) in the set of genes showing presence/absence polymorphisms between P13527 and P13626 compared to that in all the predicted genes. Genes located in GSR are over-represented among the genes with presence/absence polymorphisms (one-tailed hypergeometric test, p = 0.0012). c Percentage of RXLR effector genes, Crinkler (CRN) and CRN-like effector genes, other effector-like genes (including genes coding for small cysteine-rich proteins, protein inhibitors, hydrolases, etc.) and non-effector genes in the set of genes showing gene copy number (CN) polymorphisms between P13527 and P13626 compared to that in all the predicted genes. d Percentage of genes located in Gene Sparse Regions (GSR), Gene Dense Regions (GDR), in between GSR and GDR, and with location not determined (ND) in the set of genes showing gene copy number (CN) polymorphisms between P13527 and P13626 compared to that in all the predicted genes. Genes located in GSR are over-represented among the genes with CN polymorphisms (one-tailed hypergeometric test, p = 0.0112). However, the GSR bias for CN polymorphisms is not significant after Bonferroni correction. e Percentage of RXLR effector genes, Crinkler (CRN) and CRN-like effector genes, other effector-like genes (including genes coding for small cysteine-rich proteins, protein inhibitors, hydrolases, etc.) and non-effector genes in the set of genes showing on/off expression polymorphisms between P13527 and P13626 compared to that in all the predicted genes. Genes encoding cytoplasmic effectors of the RXLR and CRN families are over-represented among the genes with on/off expression polymorphisms (one-tailed hypergeometric test, p = 0.0129). f Percentage of genes located in Gene Sparse Regions (GSR), Gene Dense Regions (GDR), in between GSR and GDR, and with location not determined (ND) in the set of genes showing expression polymorphisms between P13527 and P13626 compared to that in all the predicted genes