Dissecting indirect genetic effects from peers in laboratory mice

The phenotype of an individual can be affected not only by the individual's own genotypes, known as direct genetic effects (DGE), but also by genotypes of interacting partners, indirect genetic effects (IGE). IGE have been detected using polygenic models in multiple species, including laborator...

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Bibliographic Details
Published in:Genome Biology 2021-07, Vol.22 (1), p.216-216, Article 216
Main Authors: Baud, Amelie, Casale, Francesco Paolo, Barkley-Levenson, Amanda M, Farhadi, Nilgoun, Montillot, Charlotte, Yalcin, Binnaz, Nicod, Jerome, Palmer, Abraham A, Stegle, Oliver
Format: Article
Language:English
Subjects:
Animals
Datasets as Topic
EphA4 protein
Female
Gene Expression
Gene loci
Gene-Environment Interaction
Genetic Heterogeneity
Genome-wide association studies
Genome-Wide Association Study
Genomes
Genotype
Genotype & phenotype
Genotype to phenotype
Genotypes
Humans
Indirect genetic effects
Laboratories
Laboratory animals
Life Sciences
Male
Mice
Multifactorial Inheritance
Peer effects
Phenotype
Phenotypes
Polymorphism, Single Nucleotide
Quantitative Trait Loci
Receptor, EphA4 - genetics
Receptor, EphA4 - metabolism
Social genetic effects
Stress, Physiological - genetics
Wound healing
Wound Healing - genetics
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Summary:The phenotype of an individual can be affected not only by the individual's own genotypes, known as direct genetic effects (DGE), but also by genotypes of interacting partners, indirect genetic effects (IGE). IGE have been detected using polygenic models in multiple species, including laboratory mice and humans. However, the underlying mechanisms remain largely unknown. Genome-wide association studies of IGE (igeGWAS) can point to IGE genes, but have not yet been applied to non-familial IGE arising from "peers" and affecting biomedical phenotypes. In addition, the extent to which igeGWAS will identify loci not identified by dgeGWAS remains an open question. Finally, findings from igeGWAS have not been confirmed by experimental manipulation. We leverage a dataset of 170 behavioral, physiological, and morphological phenotypes measured in 1812 genetically heterogeneous laboratory mice to study IGE arising between same-sex, adult, unrelated mice housed in the same cage. We develop and apply methods for igeGWAS in this context and identify 24 significant IGE loci for 17 phenotypes (FDR
ISSN:1474-760X
1474-7596
1465-6906
1474-760X
DOI:10.1186/s13059-021-02415-x