An Integrated Approach to Gene Discovery and Marker Development in Atlantic Cod (Gadus morhua)

From National Research Council Canada

DOI	Resolve DOI: https://doi.org/10.1007/s10126-010-9285-z
Author	Search for: Bowman, S.; Search for: Hubert, S.; Search for: Higgins, B.; Search for: Stone, C.; Search for: Kimball, J.¹; Search for: Borza, T.; Search for: Bussey, J.T.¹; Search for: Simpson, G.; Search for: Kozera, C.¹; Search for: Curtis, B.A.; Search for: Hall, J.R.; Search for: Hori, T.S.; Search for: Feng, C.Y.; Search for: Rise, M.; Search for: Booman, M.; Search for: Gamperl, A.K.; Search for: Trippel, E.; Search for: Symonds, J.; Search for: Johnson, S.C.; Search for: Rise, M.L.
Affiliation	National Research Council of Canada. NRC Institute for Marine Biosciences
Format	Text, Article
Subject	Alternative routes; Animal production; Antigen stimulation; Aquaculture industry; Atlantic cod; Conventional methods; Elevated temperature; EST collection; ESTs; Expressed sequence tags; Fisheries management; Gene discovery; Gene sequences; Genomics; Genomics tools; Integrated approach; Life cycle stages; Marker development; Markers; Molecular marker; Monitoring tools; Response pathways; Selective breeding; Single-nucleotide polymorphism markers; SNPs; Fisheries; Histology; Tissue; Genes; fish protein; aquaculture; capture method; domestication; fishery management; gadoid; genetic marker; genomics; life cycle; overfishing; polymorphism; selective breeding; wild population; aquaculture; Atlantic cod; breeding; DNA sequence; expressed sequence tag; gene expression profiling; gene library; genetic marker; genetic selection; genetics; metabolism; methodology; single nucleotide polymorphism; species difference; Aquaculture; Breeding; Expressed Sequence Tags; Fish Proteins; Gadus morhua; Gene Expression Profiling; Gene Library; Genetic Markers; Polymorphism, Single Nucleotide; Selection, Genetic; Sequence Analysis, DNA; Species Specificity; Canada; Animalia; Bacteria (microorganisms); Gadus morhua
Abstract	Atlantic cod is a species that has been overexploited by the capture fishery. Programs to domesticate this species are underway in several countries, including Canada, to provide an alternative route for production. Selective breeding programs have been successfully applied in the domestication of other species, with genomics-based approaches used to augment conventional methods of animal production in recent years. Genomics tools, such as gene sequences and sets of variable markers, also have the potential to enhance and accelerate selective breeding programs in aquaculture, and to provide better monitoring tools to ensure that wild cod populations are well managed. We describe the generation of significant genomics resources for Atlantic cod through an integrated genomics/selective breeding approach. These include 158,877 expressed sequence tags (ESTs), a set of annotated putative transcripts and several thousand single nucleotide polymorphism markers that were developed from, and have been shown to be highly variable in, fish enrolled in two selective breeding programs. Our EST collection was generated from various tissues and life cycle stages. In some cases, tissues from which libraries were generated were isolated from fish exposed to stressors, including elevated temperature, or antigen stimulation (bacterial and viral) to enrich for transcripts that are involved in these response pathways. The genomics resources described here support the developing aquaculture industry, enabling the application of molecular markers within selective breeding programs. Marker sets should also find widespread application in fisheries management. © 2010 The Author(s).
Publication date	2011
In	Marine Biotechnology 13, no. 2 (2011): 242–255.
Language	English
Peer reviewed	Yes
NPARC number	21271134
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Record identifier	abdc900b-50ac-4e4f-a0b6-afb6c851f6e2
Record created	2014-03-24
Record modified	2020-04-21

Date modified:: 2024-04-19