Skip to main content
ARS Home » Research » Manuscripts by Strategic Topical Areas

Characterization/Evaluation/Utilization
item Glucose regulates protein turnover and growth-related mechanisms in rainbow trout myogenic precursor cells (Mar 2019)
item Metabolomic investigation of tenderness and aging response in beef longissimus steaks (Mar 2019)
item Effects of triploidy on genetic gains in a rainbow trout (Oncorhynchus mykiss) population selectively bred for diploid growth performance (Mar 2019)
item Assessing the contribution of aquaculture and restoration to wild oyster populations in a Rhode Island Coastal Lagoon (Feb 2019)
item Whole genome resequencing refines genomic regions associated with bacterial cold water disease resistance in rainbow trout (Jan 2019)
item Variance and covariance estimates for resistance to bacterial cold water disease and columnaris disease in two rainbow trout breeding populations (Dec 2018)
item Disease at the interface of aquaculture and wild oyster reefs (Dec 2018)
item Essential amino acids exhibit variable effects on protein degradation in rainbow trout (Oncorhynchus mykiss) primary myocytes (Nov 2018)
item Evaluating the microbial effects of stocking freshwater snails (Physa gyrina) in water reuse systems culturing rainbow trout (Oncorhynchus mykiss) (Nov 2018)
item Editing the duplicated insulin-like growth factor binding protein-2b gene in rainbow trout (Oncorhynchus mykiss) (Oct 2018)
item Woodchip bioreactors as treatment for recirculating aquaculture systems’ wastewater: A cost assessment of nitrogen removal (Sep 2018)
item Genome-wide association analysis with a 50K transcribed gene SNP-chip identifies QTL affecting muscle yield in rainbow trout (Sep 2018)
item A defatted microalgae meal (Haematococcus pluvialis) as a partial protein source to replace fishmeal for feeding juvenile yellow perch Perca flavescens (Aug 2018)
item Integrated analysis of IncRNA and mRNA expression in rainbow trout families showing variation in muscle growth and fillet quality traits (Aug 2018)
item Evaluation of marker-assisted selection for resistance to bacterial cold water disease in three generations of a commercial rainbow trout breeding population (Aug 2018)
item Marker-assisted selection for resistance to bacterial cold water disease in a commercial rainbow trout breeding population (Jul 2018)
item Lessons from the application of genomic selection to rainbow trout aquaculture (Jul 2018)
item Essential amino acids exhibit variable effects on protein degradation in rainbow trout primary myoblasts (Jul 2018)
item Editing the insulin-like growth factor binding protein-2b gene in rainbow trout (Jul 2018)
item Phytogenic feed-additive effects on channel catfish rhamnose binding lectin levels and susceptibility to Edwardsiella ictaluri (Jul 2018)
item Characterizing the ham halo condition: A color defect in fresh pork biceps femoris muscle (Jul 2018)
item Predicting aged pork quality using a portable Raman device (Jul 2018)
item Rapid discovery of SNPs differentiating hatchery steelhead trout from ESA-listed natural-origin steelhead trout using a 57K SNP array (Jul 2018)
item Genome-wide genetic analysis of cultured rainbow trout (Oncorhynchus mykiss) populations in China (Jun 2018)
item Hydrodynamics of octagonal culture tanks with Cornell-type dual-drain system (Jun 2018)
item Evaluating commercial, dietary pre-, pro- and synbiotics in hybrid catfish (Jun 2018)
item Recirculating Aquaculture (4th edition) (Jun 2018)
item RAS report card - How RAS deployments have evolved to make business case for adoption (May 2018)
item Genetic improvement of disease resistance through selective breeding: Overview of concepts, considerations, and limitations (May 2018)
item Physiological and molecular mechanisms of methionine restriction (May 2018)
item Dietary methionine restriction: Effects on glucose tolerance, lipid content and micro-RNA composition in the muscle of rainbow trout (May 2018)
item Plastic carrier polishing chamber reduces pollution swapping from denitrifying woodchip bioreactors (May 2018)
item Genetic variation in anti-parasite behavior in oysters (Apr 2018)
item A new single-nucleotide polymorphism database for rainbow trout generated through whole genome re-sequencing (Apr 2018)
item Water velocity in commercial RAS culture tanks for Atlantic salmon smolt production (Mar 2018)
item How research is fueling the RAS boom (Mar 2018)
item Effect of supplemental taurine on juvenile channel catfish Ictalurus punctatus growth performance (Mar 2018)
item Genetic Parameters for Lamb Mortality Associated with Pneumonia (Mar 2018)
item Deposition and mobilization of lipids varies across the rainbow trout fillet during feed deprivation and transition from plant to fish oil-based diets (Mar 2018)
item Developments in closed-containment technologies for salmonids, Part 2 (Mar 2018)
item Developments in closed-containment technologies for salmonids, Part 1 (Feb 2018)
item Sex reversal of rainbow trout by immersion of fry in 17-Alpha Methyltestosterone (Feb 2018)
item Supplementing rainbow trout broodstock diets with choline and methionine improves offspring growth (Feb 2018)
item Effects of semi-continous peracetic acid dosing on rainbow trout Oncorhynchus mykiss performance, water quality, and off-flavor compounds in recirculation aquaculture systems (Feb 2018)
item Growth performance of Atlantic salmon (Salmo salar) smolts fed diets containing heterotrophic algal biomass as replacement of fish oil (Feb 2018)
item Growth of Atlantic salmon (Salmo salar) fed squid and scallop processing byproduct hydrolysates incorporated into soy protein concentrate (spc)-diets (Feb 2018)
item Computational fluid dynamics characterization of a novel mixed cell raceway design (Feb 2018)
item Growth of Atlantic salmon (Salmo salar) fed squid and scallop processing byproduct hydrolysates incorporated into soy protein concentrate (SPC)-diets. (Feb 2018)
item Growth performance, survival, and processing characteristics of hybrid catfish fed pre And probiotics (Feb 2018)
item Update to the Atlantic salmon breeding program at the National Cold Water Marine Aquaculture Center (Feb 2018)
item Membrane biological reactors to remove nitrate, digest biosolids, and eliminate water flushing requirements within replicated recirculation systems culturing rainbow trout (Feb 2018)
item Prospecting genomic regions associated with columnaris disease in two rainbow trout breeding populations (Feb 2018)
item The effects of long-term 20 mg/L carbon dioxide exposure on the health and performance of Atlantic salmon Salmo salar post-smolts in water recirculation aquaculture systems (Jan 2018)
item Effects of cortisol and lipopolysaccharide on expression of select growth-, stress- and immune-related genes in rainbow trout liver (Jan 2018)
item Growth and fillet quality attributes of five genetic strains of rainbow trout (Oncorhynchus mykiss) reared in a partial water reuse system and harvested at different sizes (Jan 2018)
item Evaluation of formulated feed for juvenile lake sturgeon (Acipenser fulvescens) based on growth performance and nutrient retention (Jan 2018)
item Use of DAVID algorithms for gene functional classification in a non-model organism, rainbow trout (Jan 2018)
item Treatment of lumpfish (Cyclopterus lumpus L.) infected with Gyrodactylus cyclopteri (Scyborskaya 1948) (Jan 2018)
item Egg transcripts associated with family fertility in rainbow trout (Oncorhynchus mykiss) (Jan 2018)
item Accurate genomic predictions for bacterial cold water disease resistance using low-density SNP panels in rainbow trout (Jan 2018)
item GWAS for detecting QTL associated with Columnaris Disease in two rainbow trout breeding populations (Jan 2018)
item Similar effects of QTL Haplotypes for Bacterial Cold Water Disease resistance across two generations in a commercial rainbow trout breeding population (Jan 2018)
item Evaluation of the utility of the new rainbow trout genome assembly for analyzing RNA-seq data from stress response experiments (Jan 2018)
item The effects of swimming exercise and dissolved oxygen on growth performance, fin condition and precocious maturation of early-rearing Atlantic salmon Salmo salar (Jan 2018)
item Atlantic salmon breeding program at the National Cold Water Marine Aquaculture Center (Jan 2018)
item Atlantic salmon and eastern oyster breeding programs at the National Cold Water Marine Aquaculture Center (Dec 2017)
item Responses of pregnant ewes and young lambs to ovalbumin immunization, antiovalbumin antibody transfer to lambs, and temporal changes in antiovalbumin antibody (Dec 2017)
item Freshwater Institute: Focused on improving recirculating aquaculture system technology (Dec 2017)
item The effects of ozonation on select waterborne steroid hormones in recirculation aquaculture systems containing sexually mature Atlantic salmon Salmo salar (Dec 2017)
item Genome-enabled selection doubles the accuracy of predicted breeding values for bacterial cold water disease resistance compared to traditional family-based selection in rainbow trout aquaculture (Nov 2017)
item Similar genetic architecture with shared and unique quantitative trait loci for bacterial cold water disease resistance in two rainbow trout breeding populations (Oct 2017)
item Comprehensive analysis of lncRNAs and mRNAs in skeletal muscle of rainbow trout (Oncorhynchus mykiss) exposed to estradiol (Sep 2017)
item Assessing the utility of ultraviolet irradiation to reduce bacterial biofilms in fish hatchery well water supplies (Aug 2017)
item Evaluating the chronic effects of nitrate on the health and performance of post-smolt Atlantic salmon Salmo salar in freshwater recirculation aquaculture systems (Aug 2017)
item RNA-Seq reveals MicroRNA expression signature and genetic polymorphism associated with growth and muscle quality traits in rainbow trout (Aug 2017)
item Immersion of fry in 17-Alpha Methyltestosterone can be highly effective for sex reversal in rainbow trout (Aug 2017)
item Fillet quality and processing attributes of postsmolt Atlantic salmon, Salmo salar, fed a fishmeal-free diet and a fishmeal-based diet in recirculation aquaculture systems (Aug 2017)
item Identification of SNPs associated with muscle yield and quality traits using allelic-imbalance analysis analyses of pooled RNA-Seq samples in rainbow trout (Aug 2017)
item Genome-wide association studies reveal similar genetic architecture with shared and unique QTL for Bacterial Cold Water Disease resistance in two rainbow trout (Oncorhynchus mykiss) breeding populations (Jul 2017)
item Prospecting genomic regions associated with Columnaris disease in two commercially important rainbow trout breeding populations (Jul 2017)
item Functional Analysis of All Salmonid Genomes (FAASG): an international initiative supporting future salmonid research, conservation and aquaculture (Jun 2017)
item Innate immune response of channel catfish (Ictalurus punctatus) mannose-binding lectin to channel catfish virus (Jun 2017)
item 17ß-Estradiol increases non-CpG methylation in exon 1 of the rainbow trout (Oncorhynchus mykiss) MyoD gene (Jun 2017)
item Fatty acid partitioning varies across fillet regions during sexual maturation in female rainbow trout (Oncorhynchus mykiss) (Jun 2017)
item Denitrifying woodchip bioreactor and phosphorus filter pairing to minimize pollution swapping (May 2017)
item A fishmeal-free diet for post-smolt Atlantic salmon in RAS (May 2017)
item Transcriptome response to hormonal manipulation of follicle-enclosed oocytes in rainbow trout (Apr 2017)
item Starting up a lumpfish breeding program and those pesky opportunistic bacteria (Apr 2017)
item A transdisciplinary approach to the initial validation of a single cell protein as an alternative protein source for use in aquafeeds (Mar 2017)
item Selective breeding program for sea lice Lepeophtheirus salmonis (Kroyer 1838) at the USDA's National Cold Water Marine Aquaculture Center (Mar 2017)
item Enhancement of lake sturgeon conservation through feeding management (Mar 2017)
item Woodchip bioreactors effectively treat aquaculture effluent (Mar 2017)
item Performance and application of a fluidized bed limestone reactor designed for control of alkalinity, hardness and pH at the Warm Springs Regional Fisheries Center (Mar 2017)
item Genome-wide association studies identify 25 genetic loci associated with resistance to Bacterial Cold Water Disease in rainbow trout (Feb 2017)
item Aquaculture genomics, genetics and breeding in the United States: current status, challenges, and priorities for future research (Feb 2017)
item The changing war on sea lice: the rise of non-drug based treatments (Feb 2017)
item Effects feeding zilpaterol hydrochloride on growth performance, fillet yeild, and body composition of rainbow trout, nile, tilapia, and channel catfish (Feb 2017)
item Leucine and methionine deficiency induce catabolism through non-overlapping mechanisms in rainbow trout (Oncorhynchus mykiss) primary myoblasts (Feb 2017)
item Genetic line by environment interaction on rainbow trout growth and processing traits (Feb 2017)
item Genomic selection models double the accuracy of predicted breeding values for bacterial cold water disease resistance compared to a traditional pedigree-based model in rainbow trout aquaculture (Feb 2017)
item Antisense long non-coding RNAs in rainbow trout: Discovery and potential role in muscle growth and quality traits (Jan 2017)
item A new single-nucleotide polymorphisms database for rainbow trout generated through whole genome resequencing of selected samples (Jan 2017)
item MicroRNAs associated with muscle growth and fillet quality in rainbow trout (Jan 2017)
item Genome-wide association analysis of bacterial cold water disease resistance in rainbow trout reveals the potential of a hybrid approach between genomic selection and marker assisted selection (Jan 2017)
item Identification of commercial rainbow trout strains using a SNP panel (Jan 2017)
item Scratching the surface: A sentinel exploration of sea louse infestations in Cobscook Bay, Maine (Jan 2017)
item Short-term effects of genistein on gamete quality, steroidogenesis and histological changes in gonads in gibel carp, Carassius auratus gibelio (Jan 2017)
item The genomic landscape of rapid, repeated evolutionary rescue from toxic pollution in wild fish (Dec 2016)
item Ontogenetic characterization of the intestinal microbiota of channel catfish through 16S rRNA gene sequencing reveals insights on temporal shifts and the influence of environmental microbes (Dec 2016)
item Genome-wide association study for identifying loci that affect fillet yield, carcass, and body weight traits in rainbow trout (Oncorhynchus mykiss) (Nov 2016)
item Assessing the impact of swimming exercise and the relative susceptibility of rainbow trout oncorhynchus mykiss (walbaum) and atlantic salmon salmo salar L. following injection challenge with weissella ceti (Nov 2016)
item Atlantic salmon and eastern oyster breeding programs at the National Cold Water Marine Aquaculture Center (Nov 2016)
item Identification of mitochondrial genome-encoded small RNAs related to egg deterioration caused by postovulatory aging in rainbow trout (Oct 2016)
item Genetic basis for evolved tolerance to dioxin-like pollutants in wild atlantic killifish: more than the aryl hydrocarbon receptor (Oct 2016)
item Woodchip bioreactors effectively treat aquaculture effluent (Oct 2016)
item Low head oxygenator performance characterization for marine recirculating aquaculture systems (Oct 2016)
item Aquaculture research at the Conservation Fund Freshwater Institute (Oct 2016)
item Investigating the influence of nitrate nitrogen on post-smolt Atlantic salmon Salmo salar reproductive physiology in freshwater recirculation aquaculture systems (Oct 2016)
item Assessment of genetic differentiation and genetic assignment of commercial rainbow trout strains using a SNP panel (Oct 2016)
item A review of factors influencing maturation of atlantic salmon salmo salar with focus on water recirculation aquaculture system environments (Oct 2016)
item Walleye Sander vitreus performance, water quality, and waste production in replicated recirculation aquaculture systems when feeding a low phosphorus diet without fishmeal versus a traditional fishmeal-based diet (Sep 2016)
item Opportunistic bacterial infection in wild caught Lumpfish (Sep 2016)
item Response to five generations of selection for growth performance traits in rainbow trout (Oncorhynchus mykiss) (Sep 2016)
item Denitrifying bioreactor clogging potential during wastewater treatment (Aug 2016)
item Getting proficient in RAS fundamentals - TCFFI trains aquaculture facility owners, operators and designers (Aug 2016)
item Survey of large circular and octagonal tanks operated at Norwegian commercial smolt and post-smolt sites (Jul 2016)
item Effects of incubation temperatures on embryonic and larval survival in rainbow trout, Oncorhynchus mykiss (Jul 2016)
item Effects of steroid treatment on growth, nutrient partitioning, and expression of genes related to growth and nutrient metabolism in adult triploid rainbow trout (Oncorhynchus mykiss) (Jul 2016)
item Specific Roles for 17ß-Estradiol versus Gonad Development in Nutrient Partitioning and Regulation of Nutrient- and Growth-Related Mechanisms During Sexual Maturation in Rainbow Trout (Jun 2016)
item Growth and fatty acid composition of two strains of Arctic charr (Salvelinus alpinus) on diets formulated with low fish oil inclusion in a recirculating aquaculture system (Jun 2016)
item Leucine and isoleucine reduce protein degradation in rainbow trout (Oncorhynchus mykiss) primary myoblast cultures (Jun 2016)
item Use of ß-adrenergic agonists in hybrid catfish (Jun 2016)
item Performance of selected eastern oyster lines across northeastern US estuaries (Jun 2016)
item Development of multitissue microfluidic dynamic array for assessing changes in gene expression associated with channel catfish appetite, growth, metabolism, and intestinal health (Jun 2016)
item Evaluation of genome-enabled selection for bacterial cold water disease resistance using progeny performance data in Rainbow Trout: Insights on genotyping methods and genomic prediction models (May 2016)
item Comparison of hydraulics and particle removal efficiencies in a mixed cell raceway and burrows pond rearing system (May 2016)
item Modeling and mitigation of denitrification 'woodchip' bioreactor phosphorus releases during treatment of aquaculture wastewater (May 2016)
item Effects of feeding a fishmeal-free versus a fishmeal-based diet on post-smolt Atlantic salmon salmo salar performance, water quality, and waste production in recirculation aquaculture systems (May 2016)
item Production of market-size North American strain Atlantic salmon Salmo salar in a land-based recirculation aquaculture system using freshwater (May 2016)
item The Atlantic salmon genome provides insights into rediploidization (May 2016)
item The influence of fishmeal-free diets on microbial communities in Atlantic salmon Salmo salar recirculation aquaculture systems (Apr 2016)
item A New and Improved Rainbow Trout (Oncorhynchus mykiss) Reference Genome Assembly (Apr 2016)
item Genomic selection for Bacterial Cold Water Disease resistance in rainbow trout (Apr 2016)
item Optimizing hydraulic retention times in denitrifying woodchip bioreactors treating recirculating aquaculture system wastewater (Apr 2016)
item Fishmeal-free Atlantic salmon feed formulation shows promise - Joint research between TCFFI, USDA and EWOS uses new diet for post-smolt to food-size fish (Apr 2016)
item An integrated genetic linkage map and comparative genome analysis for the estuarine Atlantic killifish, Fundulus heteroclitus (Mar 2016)
item Bottom-up GGM algorithm for constructing multiple layered hierarchical gene regulatory networks (Mar 2016)
item Estradiol regulates expression of miRNAs associated with myogenesis in rainbow trout (Mar 2016)
item Addition of a selective breeding program for resistance to sea lice Lepeophtheirus salmonis (Kroyer 1838) to existing lines of Atlantic Salmon, Salmo salar L., at the USDA's National Cold Water Marine Aquaculture Center (Feb 2016)
item Identification of mitochondrial genome-encoded small RNAs related to egg quality deterioration caused by post-ovulatory aging in rainbow trout (Feb 2016)
item Changes in gene expression during follicle maturation in rainbow trout Oncorhynchus mykiss (Feb 2016)
item A panel of single nucleotide ploymorphism for parentage assignment in rainbow trout (Feb 2016)
item Identification and Functional Prediction of Large Intergenic Noncoding RNAs (lincRNAs) in Rainbow Trout (Oncorhynchus mykiss) (Feb 2016)
item Comparative economic performance and carbon footprint of two farming models for producing atlantic salmon (salmo salar): Land-based closed containment system in freshwater and open pen in seawater (Feb 2016)
item Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients (Jan 2016)
item A new rainbow trout (Oncorhynchus mykiss) reference genome assembly (Jan 2016)
item Genome-wide association study for identifying genome loci that affect fillet yield in rainbow trout (Oncorhynchus mykiss) (Jan 2016)
item Genomic Selection For Bacterial Cold Water Disease Resistance In Rainbow Trout Reveals Large Within-Family Variation That Cannot Be Exploited In Traditional Family-based Selective Breeding (Jan 2016)
item Role of long non-coding RNAs in bacterial cold water disease pathogenesis in rainbow trout (Jan 2016)
item Weighted ssGBLUP improves genomic selection accuracy for bacterial cold water disease resistance in a rainbow trout population (Jan 2016)
item Development and validation of a SNP panel for parentage assignment in rainbow trout (Nov 2015)
item Novel air-based system transfers large salmon during harvest (Nov 2015)
item Identification of single nucleotide polymorphism markers associated with bacterial cold water disease resistance and spleen size in rainbow trout (Sep 2015)
item Detection and validation of QTL affecting bacterial cold water disease resistance in rainbow trout using restriction-site associated DNA sequencing (Sep 2015)
item Markers associated with disease resistance in Eastern oysters, Crassostrea virginica (Aug 2015)
item Characterization of phenotypic variation for dermo resistance among selectively-bred families of the Eastern oyster, Crassostrea virginica (Aug 2015)
item Nitrate removal effectiveness of fluidized sulfur-based autotrophic denitrification biofilters for recirculating aquaculture systems (Jul 2015)
item Crowder/grader units improve harvest efficiency in large circular tanks (Jul 2015)
item Genomic selection for BCWD resistance in Rainbow trout using RADSNP and SNP genotyping platforms, single-step GBLUP and Bayesian variable selection models (Jun 2015)
item A high density genetic linkage map for rainbow trout (Onchorynchus mykiss) containing 47,839 SNPS (Jun 2015)
item Hydrolysates from scallop and squid processing byproducts as specialty aquafeed ingredients (May 2015)
item The use of –omic tools in the study of disease processes in marine bivalves (May 2015)
item Systemic granuloma observed in Atlantic salmon Salmo salar raised to market size in a freshwater recirculation aquaculture system (May 2015)
item Developing tools for the study of molluscanimmunity: The sequencing of the genome of the eastern oyster, Crassostreavirginica (May 2015)
item Emerging trends in salmonid RAS - Part II. System enhancements (May 2015)
item Reduced photoperiod (18 h light vs 24 h light) during first-year rearing associated with increased early male maturation in Atlantic salmon Salmo salar cultured in a freshwater recirculation aquaculture system (Mar 2015)
item Emerging trends In salmonid RAS - Part I. Closed-containment culture advances (Mar 2015)
item Selection responses for caracass weight in four Atlantic Salmon year classes (Jan 2015)
item Potential use of the invasive European green crab (Carcinus maenas) as an ingredient in Atlantic Salmon (Salmo salar) diets; a preliminary analysis (Jan 2015)
item Heterotrophic denitrification of aquaculture effluent using fluidized sand biofilters (Nov 2014)
item Effects of alkalinity on ammonia removal, carbon dioxide stripping, and system pH in semi-commercial scale water recirculating aquaculture systems operated with moving bed bioreactors (Nov 2014)
item Fish farming in land-based closed-containment systems (Mar 2014)
item New technology turns wastes into revenue at Indiana perch farm (Nov 2013)