Caird E. Rexroad
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View article: The generation of the first chromosome-level de novo genome assembly and the development and validation of a 50K SNP array for the St. John River aquaculture strain of North American Atlantic salmon
The generation of the first chromosome-level de novo genome assembly and the development and validation of a 50K SNP array for the St. John River aquaculture strain of North American Atlantic salmon Open
Atlantic salmon (Salmo salar) in Northeastern US and Eastern Canada has high economic value for the sport fishing and aquaculture industries. Large differences exist between the genomes of Atlantic salmon of European origin and North Ameri…
View article: The generation of the first chromosome-level de-novo genome assembly and the development and validation of a 50K SNP array for North American Atlantic salmon
The generation of the first chromosome-level de-novo genome assembly and the development and validation of a 50K SNP array for North American Atlantic salmon Open
Given the genetic and genomic differences between Atlantic salmon of European origin and North American (N.A.) origin, it is crucial to develop unique genomic resources for each lineage. Here we describe the resources that we recently deve…
View article: Advancing genome editing to improve the sustainability and resiliency of animal agriculture
Advancing genome editing to improve the sustainability and resiliency of animal agriculture Open
Animal agriculture faces unprecedented challenges, including the need to increase productivity to meet increasing demands for high quality protein while combating increasing pest and disease pressures, improving animal welfare, adapting to…
View article: Microsatellite primers for red drum (Sciaenops ocellatus)
Microsatellite primers for red drum (Sciaenops ocellatus) Open
In this note, we document polymerase-chain-reaction (PCR) primer pairs for 101 nuclear-encoded microsatellitesdesigned and developed from a genomic library for red drum (Sciaenops ocellatus). Details of the genomic library construction, th…
View article: Opportunities for <scp>U.S.</scp> marine finfish aquaculture
Opportunities for <span>U.S.</span> marine finfish aquaculture Open
Expanding aquaculture production in the United States affords opportunities to complement fisheries in meeting domestic demand for seafood. This access to safe, affordable, and healthy food choices is provided with minimal impacts on the e…
View article: Additional file of Characterization of the rainbow trout transcriptome using Sanger and 454-pyrosequencing approaches
Additional file of Characterization of the rainbow trout transcriptome using Sanger and 454-pyrosequencing approaches Open
Additional file of Characterization of the rainbow trout transcriptome using Sanger and 454-pyrosequencing approaches
View article: Additional file 1 of Characterization of the rainbow trout transcriptome using Sanger and 454-pyrosequencing approaches
Additional file 1 of Characterization of the rainbow trout transcriptome using Sanger and 454-pyrosequencing approaches Open
Additional file 1: BLASTx top-hit fish species. Top-hit from BLASTx search matching sequences from fish species (XLS 12 MB)
View article: Improving Production of the Eastern Oyster Crassostrea virginica through Coordination of Genetic Improvement Programs, Research, and Technology Transfer Activities
Improving Production of the Eastern Oyster Crassostrea virginica through Coordination of Genetic Improvement Programs, Research, and Technology Transfer Activities Open
The East Coast Shellfish Growers Association has been actively advocating for continued improvement of breeding infrastructure to support a vibrant and ecologically crucial industry. This white paper acknowledges these efforts and is meant…
View article: A New Single Nucleotide Polymorphism Database for North American Atlantic Salmon Generated Through Whole Genome Resequencing
A New Single Nucleotide Polymorphism Database for North American Atlantic Salmon Generated Through Whole Genome Resequencing Open
DATA REPORT article Front. Genet., 21 February 2020Sec. Livestock Genomics Volume 11 - 2020 | https://doi.org/10.3389/fgene.2020.00085
View article: Additional file of A first generation integrated map of the rainbow trout genome
Additional file of A first generation integrated map of the rainbow trout genome Open
Additional file of A first generation integrated map of the rainbow trout genome
View article: Additional file of A first generation integrated map of the rainbow trout genome
Additional file of A first generation integrated map of the rainbow trout genome Open
Additional file of A first generation integrated map of the rainbow trout genome
View article: Additional file 3 of A first generation integrated map of the rainbow trout genome
Additional file 3 of A first generation integrated map of the rainbow trout genome Open
Additional file 3:Additional material(XLS 244 KB)
View article: Additional file 1 of A first generation integrated map of the rainbow trout genome
Additional file 1 of A first generation integrated map of the rainbow trout genome Open
Additional file 1:BES microsatellites(XLS 190 KB)
View article: A Vision for Development and Utilization of High-Throughput Phenotyping and Big Data Analytics in Livestock
A Vision for Development and Utilization of High-Throughput Phenotyping and Big Data Analytics in Livestock Open
Automated high-throughput phenotyping with sensors, imaging, and other on-farm technologies has resulted in a flood of data that are largely under-utilized. Drastic cost reductions in sequencing and other omics technology have also facilit…
View article: Genome to Phenome: Improving Animal Health, Production, and Well-Being – A New USDA Blueprint for Animal Genome Research 2018–2027
Genome to Phenome: Improving Animal Health, Production, and Well-Being – A New USDA Blueprint for Animal Genome Research 2018–2027 Open
In 2008, a consortium led by the Agricultural Research Service (ARS) and the National Institute for Food and Agriculture (NIFA) published the "Blueprint for USDA Efforts in Agricultural Animal Genomics 2008-2017," which served as a guiding…
View article: Aquaculture genomics, genetics and breeding in the United States: current status, challenges, and priorities for future research
Aquaculture genomics, genetics and breeding in the United States: current status, challenges, and priorities for future research Open
Advancing the production efficiency and profitability of aquaculture is dependent upon the ability to utilize a diverse array of genetic resources. The ultimate goals of aquaculture genomics, genetics and breeding research are to enhance a…
View article: Additional file 16: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients
Additional file 16: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients Open
SNPs surpassing the DI threshold cut-off and their localization to contigs with detected differences in gene expression between large and small fish and seasonally grouped fish. (XLSX 20 kb)
View article: Additional file 18: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients
Additional file 18: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients Open
Fasta sequences for the contigs compiled from the SRR020739 and SRR020740 libraries. (TXT 24095 kb)
View article: Additional file 8: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients
Additional file 8: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients Open
Contigs with higher expression in September fish. FDR significant genes used for the GSEA are highlighted in column E and their associated HGNC symbol is given in column I. (XLSX 270 kb)
View article: Additional file 7: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients
Additional file 7: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients Open
Shared contigs between size and season groups. (XLSX 27 kb)
View article: Additional file 12: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients
Additional file 12: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients Open
Contigs with higher expression in male fish. FDR significant genes used for the GSEA are highlighted in column E and their associated HGNC symbol is given in column I. (XLSX 255 kb)
View article: Additional file 3: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients
Additional file 3: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients Open
Contigs with higher expression in small fish. FDR significant genes used for the GSEA are highlighted in column E and their associated HGNC symbol is given in column I. (XLSX 206 kb)
View article: Additional file 11: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients
Additional file 11: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients Open
Contigs with higher expression in female fish. FDR significant genes used for the GSEA are highlighted in column E and their associated HGNC symbol is given in column I. (XLSX 244 kb)
View article: Additional file 17: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients
Additional file 17: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients Open
Matches of growth-related SNPs reported in Salem et al. [ 37 ] to contigs exhibiting differential expression between large and small rainbow trout. (XLSX 19 kb)
View article: Additional file 19: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients
Additional file 19: of Transcriptome profiling in fast versus slow-growing rainbow trout across seasonal gradients Open
Possible annotations for the de novo assembled contigs from the current study. (XLSX 3810 kb)