Neighbor QTL: an interval mapping method for quantitative trait loci underlying plant neighborhood effects.

ABSTRACT: Phenotypes of sessile organisms, such as plants, rely not only on their own genotypes but also on those of neighboring individuals. Previously, we incorporated such neighbor effects into a single-marker regression using the Ising model of ferromagnetism. However, little is known regarding how neighbor effects should be incorporated in quantitative trait locus (QTL) mapping. In this study, we propose a new method for interval QTL mapping of neighbor effects, designated "neighbor QTL," the algorithm of which includes: (1) obtaining conditional self-genotype probabilities with recombination fraction between flanking markers; (2) calculating conditional neighbor genotypic identity using the self-genotype probabilities; and (3) estimating additive and dominance deviations for neighbor effects.

SUBMITTER: Sato Y 

PROVIDER: S-EPMC8022948 | biostudies-literature | 2021 Feb

REPOSITORIES: biostudies-literature