Access to a well-annotated salmon genome that will directly benefit the world’s fisheries and aquaculture industries is one step closer to reality as the International Cooperation to Sequence the Atlantic Salmon Genome (the Cooperation) is issuing a Request for Proposals (RFP) for Phase 2 of this multi-million dollar project.
Genome BC has partnered with the Chilean Economic Development Agency, InnovaChile, Norwegian Research Council, Norwegian Fishery and Aquaculture Industry Research Fund to form the Cooperation for this multi-phased project.
The project’s goal is to produce a genome sequence that identifies and maps the genes in the Atlantic salmon genome. This genome will then act as a reference/guide sequence for the genomes of other salmonids such as Pacific salmon, rainbow trout and more distantly related fish such as smelt and pike.
Unlike the human and mouse genome sequencing projects, the Atlantic salmon genome sequence will not be considered a “finished” sequence. The quality of the Atlantic salmon sequence will be critical as it must be sufficient to support detailed analyses, such as comparisons of duplicated regions within the genome and comparative genomics involving other fish species. Some of its applications will be the population management of wild fish stocks, food security and traceability, conservation of populations at risk and broodstock selection for commercially important traits.
The main objective of Phase 2 is the completion of the sequencing component, and will primarily be conducted using next generation sequencing technologies. The RFP is targeting large-scale sequencing centres or a consortium of academic and/or commercial centres that are believed to have the expertise and capacity to participate in a project of this scale. The successful centre(s) will work collaboratively with the Cooperation to interpret and annotate the data. The RFP is being disseminated internationally.
Phase 1 of the project was awarded to Beckman Coulter Genomics to produce a genome with 4X coverage from Sanger sequencing using paired-end, plasmid, fosmid and BACs. It is expected that this phase will be completed by January, 2011.
The deadline to submit proposals to the Cooperation is no later than January 14, 2011.
All inquiries regarding the Cooperation, including the submission of proposals, can be directed in writing to the RFP Contact:
Dr. Steinar Bergseth
Chair, International Steering Committee, ICSASG
c/o The Office of the Chief Scientific Officer, Genome BC
E: mhasham[.]genomebc.ca / P: 604-675-1020
About Genome British Columbia
Founded in 2000, Genome BC (genomebc.ca) works collaboratively with government, universities and industry as the catalyst for a genomics-driven life sciences cluster with significant social and economic benefits for the Province and Canada. The organization's research portfolio, over $450 million since inception, includes 96 projects and technology platforms focused on areas of strategic importance to British Columbia such as human health, forestry, fisheries, bioenergy, mining, agriculture, and the environment. In addition, a critical element of responsible genomics research is to provide a forum through which accompanying environmental, ethical, economic, legal and social issues can be explored so that the context for scientific research remains focussed and relevant to society.
Genome BC programs are funded by the Provincial Government of British Columbia, Government of Canada through Genome Canada and Western Economic Diversification Canada, and other public and private partners.