Fig. 2

Recombination frequency in the M. lini genome. a Histogram of the number of recombination breakpoints per individual in the 77 individuals of the CH5 F₂ mapping family. b Scatter plot showing the correlation between cumulative scaffold length and the number of markers or number of recombination breakpoints per linkage group. Best-fit linear regression lines are shown for each data series. c Histogram of the cumulative scaffold length associated with each recombination bin in the CH5 genetic map. Recombination coldspots were considered bins for which the cumulative scaffold length exceeded 200 kb. The cumulative scaffold length associated with bins containing avirulence genes and the I-1 avirulence inhibitor are indicated; where an avirulence gene is associated with more than one bin, the bin with the largest cumulative scaffold length is shown. AvrP/P123 and AvrP4 are not shown as they do not co-segregate with any markers in the CH5 genetic map. See Additional file 2 for a description of how cumulative scaffold length was calculated. d DNA sequence content in fractions of the genome with differing recombination rate. The 2756 recombination bins were ordered by increasing cumulative scaffold length and grouped to produce ten genome fractions of approximately equal physical size (11.65 ± 0.01 Mb; see Additional file 9), with group 1 representing regions of the genome with the highest recombination rate and group 10 representing regions of the genome with the lowest recombination rate. Gene density, effector density and the percentage repeat-masked DNA were then determined for each genome fraction. Best-fit linear regression lines are shown for each data series