Supplementary Figures for Sato, Takeda, and Nagano, 2020

Figure S1. Pilot QTL experiment using Arabidopsis thaliana and the yellow-striped flea beetle Phyllotreta striolata. (A) An adult beetle on a vegetative plant. (B) An experimental cage including 130 Col × Kas RILs. (C) A plant attacked by P. striolata. Leaf holes were made by adult beetles. (D) Histogram for the observed number of leaf holes.

Figure S2. Relationship between the marker heritability h² and the true distance of neighbor effects in simulated F2 and backcross datasets. The marker heritability indicates the proportion of phenotypic variation explained by polygenic self effects (see the subsection "Variation partitioning with the QTL model" in the main text).

Figure S3. Self-QTL effects on (A) the trichome production, (B) the number of leaf holes, and (C) bolting of Col × Kas RILs of Arabidopsis thaliana. The same analysis shown in Figure 4 was performed using the Haley-Knott regression implemented in the scanone() function of R/qtl package (Broman et al. 2003).

Figure S4. Epistasis in neighbor QTL effects on the number of leaf holes between the nga8 and other markers. Colors correspond to chromosome numbers, and dots indicate observed markers. A dashed horizontal line indicates a suggestive (p<0.1) LOD threshold with 999 permutations.