Figure 2.

Segregation distortion and direction of linkage disequilibrium (LD) change. Three hybrid generations of 92 plants each are included (S₁, BC₁, and BC_1S1; columns 1–3, respectively), for each of nine linkage groups and an anonymous group of loci. Parentage, linkage group, and mapping distance in cm are according to Syed et al. (2006). Differences in gray-shading among loci within columns indicate LD alterations, based on marginal LD compared with the S₁, greenhouse-grown, control generation (α = 0.05, corrected for multiple testing following Benjamini and Hochberg 1995): black segments indicate increased LD, and hatched segments indicate lowered LD. The allelic bias (‘distortion’) is indicated next to the loci per column (α = 1/loci per generation), compared with the segregation as observed in the (extrapolated) control generation. Dark-colored loci contain significantly more crop (L. sativa) alleles than expected over 92 plants; light-colored loci contain significantly more wild relative (L. serriola) alleles. SSAP loci are prefixed with ‘C0’; NBS with ‘NBS’; all other prefixes represent AFLP loci. ‘X’ represents missing data. Within the BC₁ generation, loci either with a L. serriola band presence or dominantly scored provided no segregation and LD signal (underlined loci). For the ease of readability, distances smaller than 1.8 cm are not scaled.