College of Agriculture & Natural Resources

Permanent URI for this communityhttp://hdl.handle.net/1903/1598

The collections in this community comprise faculty research works, as well as graduate theses and dissertations.

Browse

Subject: search.filters.subject.genes

Search Results

Now showing 1 - 2 of 2
  • Thumbnail Image
    Item
    Weighted Single-Step GWAS Identifies Genes Influencing Fillet Color in Rainbow Trout
    (MDPI, 2022-07-26) Ahmed, Ridwan O.; Ali, Ali; Al-Tobasei, Rafet; Leeds, Tim; Kenney, Brett; Salem, Mohamed
    The 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.
  • Thumbnail Image
    Item
    IDENTIFYING HIGHLY CONSERVED PATHOGENICITY GENES IN CHESTNUT BLIGHT AND POWDERY MILDEW FUNGI AS TARGETS FOR NOVEL FORMS OF HOST RESISTANCE
    (2019) Levine, Bruce Jonathan; Xiao, Shunyuan; Plant Science and Landscape Architecture (PSLA); Digital Repository at the University of Maryland; University of Maryland (College Park, Md.)
    A bioinformatic search of the genomes of chestnut blight fungus, Cryphonectria parasitica (Cp), and the Arabidopsis powdery mildew fungus, Golovinomyces cichoracearum (Gc), yielded six suspected pathogenicity genes with homologues in both species. Deletion of these genes by homologous gene replacement was attempted in Cp, with one success, TG4. The TG4-knockout strain showed changes in phenotype and reduced fungal virulence against chestnut. TG4 appears to be a promising target for host-induced gene silencing (HIGS) in transgenic American chestnut. The use of homologues from genetically tractable species like Cp can help overcome the obstacles to performing reverse genetics on intractable, biotrophic fungi such as Gc. Experiments underway involving the silencing and ectopic overexpression of the Gc homologues of the target genes provide a rapid method to study Cp genes, including to screen additional candidate genes as future targets for HIGS.