bioRxivJClub
Dissecting oligogenic and polygenic indirect genetic effects through the lens of neighboring plant genotypes
bioRxiv · · Preprint · Open access
Sato, Hamazaki
Abstract ↗AI summary
The abstract is read at the publisher; the summary is JClub's.
A multi-kernel mixed model integrating polygenic and oligogenic indirect genetic effects improves GWAS/GP performance slightly while inferring a trade-off between direct and indirect effects in simulations.
- Why it matters: Indirect genetic effects, where one plant’s phenotype depends on neighboring genotypes, are hard to separate from direct genetic effects, limiting genomic prediction and association studies of mixing ability.
- What they did: The authors used a multi-kernel mixed model with two random effects (one covariance parameter for polygenic IGEs) and neighbor allelic similarity to test SNP-marker effects for oligogenic IGEs, then applied it to three woody plant species.
- The result: Evidence for intergenotypic competition was found in Populus (aspen) and Malus (apple) trees, but limited evidence in Vitis (climbing grapevines), and GWAS detected significant variants linked to competitive IGEs on the apple trunk growth.
The findingWhy it mattersWhat they didThe result
- Open access