Weighted Single-Step GWAS Identifies Genes Influencing Fillet Color in Rainbow Trout

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dc.contributor.authorAhmed, Ridwan O.
dc.contributor.authorAli, Ali
dc.contributor.authorAl-Tobasei, Rafet
dc.contributor.authorLeeds, Tim
dc.contributor.authorKenney, Brett
dc.contributor.authorSalem, Mohamed
dc.date.accessioned2023-10-19T19:43:25Z
dc.date.available2023-10-19T19:43:25Z
dc.date.issued2022-07-26
dc.description.abstractThe visual appearance of the fish fillet is a significant determinant of consumers’ purchase decisions. Depending on the rainbow trout diet, a uniform bright white or reddish/pink fillet color is desirable. Factors affecting fillet color are complex, ranging from the ability of live fish to accumulate carotenoids in the muscle to preharvest environmental conditions, early postmortem muscle metabolism, and storage conditions. Identifying genetic markers of fillet color is a desirable goal but a challenging task for the aquaculture industry. This study used weighted, single-step GWAS to explore the genetic basis of fillet color variation in rainbow trout. We identified several SNP windows explaining up to 3.5%, 2.5%, and 1.6% of the additive genetic variance for fillet redness, yellowness, and whiteness, respectively. SNPs are located within genes implicated in carotenoid metabolism (β,β-carotene 15,15′-dioxygenase, retinol dehydrogenase) and myoglobin homeostasis (ATP synthase subunit β, mitochondrial (ATP5F1B)). These genes are involved in processes that influence muscle pigmentation and postmortem flesh coloration. Other identified genes are involved in the maintenance of muscle structural integrity (kelch protein 41b (klh41b), collagen α-1(XXVIII) chain (COL28A1), and cathepsin K (CTSK)) and protection against lipid oxidation (peroxiredoxin, superoxide dismutase 2 (SOD2), sestrin-1, Ubiquitin carboxyl-terminal hydrolase-10 (USP10)). A-to-G single-nucleotide polymorphism in β,β-carotene 15,15′-dioxygenase, and USP10 result in isoleucine-to-valine and proline-to-leucine non-synonymous amino acid substitutions, respectively. Our observation confirms that fillet color is a complex trait regulated by many genes involved in carotenoid metabolism, myoglobin homeostasis, protection against lipid oxidation, and maintenance of muscle structural integrity. The significant SNPs identified in this study could be prioritized via genomic selection in breeding programs to improve fillet color in rainbow trout.
dc.description.urihttps://doi.org/10.3390/genes13081331
dc.identifierhttps://doi.org/10.13016/dspace/h7eb-kux0
dc.identifier.citationAhmed, R.O.; Ali, A.; Al-Tobasei, R.; Leeds, T.; Kenney, B.; Salem, M. Weighted Single-Step GWAS Identifies Genes Influencing Fillet Color in Rainbow Trout. Genes 2022, 13, 1331.
dc.identifier.urihttp://hdl.handle.net/1903/31077
dc.language.isoen_US
dc.publisherMDPI
dc.relation.isAvailableAtCollege of Agriculture & Natural Resourcesen_us
dc.relation.isAvailableAtAnimal & Avian Sciencesen_us
dc.relation.isAvailableAtDigital Repository at the University of Marylanden_us
dc.relation.isAvailableAtUniversity of Maryland (College Park, MD)en_us
dc.subjectfillet color
dc.subjectrainbow trout
dc.subjectGWAS
dc.subjectgenetic markers
dc.subjectgenes
dc.titleWeighted Single-Step GWAS Identifies Genes Influencing Fillet Color in Rainbow Trout
dc.typeArticle
local.equitableAccessSubmissionNo

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