Fig. 1: The application of Neighbor GWAS to randomized mixtures of Arabidopsis thaliana genotypes in the field.
From: Reducing herbivory in mixed planting by genomic prediction of neighbor effects in the field
a Neighbor GWAS model that includes neighbor genotype effects besides focal genotype effects. The term \(\left({\sum }_{j=1}^{J}{x}_{i}{x}_{j}\right)/J\) represents the mean allele similarity between the focal (\({x}_{i}\)) and neighbor (\({x}_{j}\); \(j\) up to \(J\)) individuals. The coefficients \({\beta }_{1}\) or \({\beta }_{2}\) represent the single-locus effects of the focal or neighbor genotypes on the phenotype value of the \(i\)-th focal individual \({y}_{i}\), respectively. The upper right inset shows a numerical example of a decrease in mean phenotypic values (blue curve) between the two genotypes (black and gray lines) in response to genotype frequencies in a neighborhood when \({\beta }_{2} > 0\). b 1600 A. thaliana individuals (200 plants \(\times\) 8 randomized blocks) were planted in the Zurich or Otsu site for two years. The potted plants were arranged in a checkered manner, as shown in the picture in (a).
