Journal of Fish Biology · 2023 · published online on November 9, 2022
Redundancy analysis, genome-wide association studies and the pigmentation of brown trout (Salmo trutta L.)
Using 75,684 SNPs, the study combines redundancy analysis and genome-wide association studies to explore the molecular basis of pigmentation in wild brown trout affected by hatchery fish. It identifies 337 independent colour-patterning loci spread over 35 of the 40 linkage groups.
- The question
- What genetic basis explains pigmentation variation in brown trout?
- The approach
- Genotyping of 75,684 SNPs, redundancy analysis (RDA) and single- and multi-trait genome-wide association studies, on traits such as the number of red and black spots on the flanks.
- What the article brings
- 337 colour-patterning loci over 35 of the 40 linkage groups, pointing to a polygenic architecture; they are associated with 218 candidate genes, including known pigmentation genes (PMEL, SLC45A2, SOX10).
- The limits
- Associated loci and candidate genes, without functional demonstration; redundancy analysis also proves useful to follow pigmentation across generations of hatchery introgression.
Figures from the article
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