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Functional Analysis of All Salmonid Genomes (FAASG): an international initiative supporting future salmonid research, conservation and aquaculture
Daniel J. Macqueen, Craig R. Primmer, Ross D. Houston, Barbara F. Nowak, Louis Bernatchez, Steinar Bergseth, William S. Davidson, Cristian Gallardo-Escárate, Tom Goldammer, Yann Guiguen, Patricia Iturra, James W. Kijas, Ben F. Koop, Sigbjørn Lien, Alejandro Maass, Samuel A.M. Martin, Philip McGinnity, Martin Montecino, Kerry A. Naish, Krista M. Nichols, Kristinn Ólafsson, Stig W. Omholt, Yniv Palti, Graham S. Plastow, Caird E. Rexroad 3rd, Matthew L. Rise, Rachael J. Ritchie, Simen R. Sandve, Patricia M. Schulte, Alfredo Tello, Rodrigo Vidal, Jon Olav Vik, Anna Wargelius, José Manuel Yáñez
doi: https://doi.org/10.1101/095737
Daniel J. Macqueen
1Institute of Biological and Environmental Sciences, University of Aberdeen, Aberdeen AB24 2TZ, United Kingdom.
Craig R. Primmer
2Department of Biology, University of Turku, 20014, Finland.
Ross D. Houston
3The Roslin Institute and Royal (Dick) School of Veterinary Studies, The University of Edinburgh, Midlothian, EH25 9RG, UK.
Barbara F. Nowak
4Institute for Marine and Antarctic Studies, University of Tasmania Launceston, Tasmania, Australia.
Louis Bernatchez
5Département de biologie, Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, Canada, G1V 0A6.
Steinar Bergseth
6The Research Council of Norway, Drammensveien 288, P.O.Box 564, NO-1327 Lysaker, Norway.
William S. Davidson
7Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia V5A 1S6, Canada.
Cristian Gallardo-Escárate
8Laboratory of Biotechnology and Aquatic Genomics, Interdisciplinary Center for Aquaculture Research, Department of Oceanography, Universidad de Concepción, Concepción 4030000, Chile
Tom Goldammer
9Leibniz Institute for Farm Animal Biology, Institute for Genome Biology, Fish Genetics Unit, Wilhelm-Stahl-Allee 2, 18196, Dummerstorf, Germany.
Yann Guiguen
10INRA, UR1037 Fish Physiology and Genomics, Rennes, France.
Patricia Iturra
11Faculty of Medicine, University of Chile, Santiago 8380453, Chile.
James W. Kijas
12CSIRO Agriculture, St Lucia, QLD, 4067, Australia.
Ben F. Koop
13Department of Biology, University of Victoria, Victoria, British Columbia V8W 3N5, Canada.
Sigbjørn Lien
14Centre for Integrative Genetics (CIGENE), Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences, Ås NO-1432, Norway.
Alejandro Maass
15Center for Mathematical Modelling, Department of Mathematical Engineering, University of Chile, Santiago 8370456, Chile.
16Center for Genome Regulation, University of Chile, Santiago 8370456, Chile.
Samuel A.M. Martin
1Institute of Biological and Environmental Sciences, University of Aberdeen, Aberdeen AB24 2TZ, United Kingdom.
Philip McGinnity
17School of Biological, Earth and Environmental Sciences, University College Cork, Cork, Ireland.
Martin Montecino
18Center for Biomedical Research, Universidad Andres Bello, Santiago 8370146, Chile
19FONDAP Center for Genome Regulation, Faculty of Biological Sciences and Faculty of Medicine, Universidad Andres Bello, Santiago 8370146.
Kerry A. Naish
20School of Aquatic and Fishery Sciences, University of Washington, Box 355020, Seattle, WA 98195, USA.
Krista M. Nichols
21Conservation Biology Division, Northwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, 2725 Montlake Blvd E, Seattle, WA, 98112, USA.
Kristinn Ólafsson
22Matis Ltd, Vínlandsleið 12, 113 Reykjavík, Iceland.
Stig W. Omholt
14Centre for Integrative Genetics (CIGENE), Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences, Ås NO-1432, Norway.
23NTNU - Norwegian University of Science and Technology, NO-7491 Trondheim, Norway.
Yniv Palti
24National Center for Cool and Cold Water Aquaculture, UsDA ARS, 11861 Leetown Road, Kearneysville, WV, 25430, USA.
Graham S. Plastow
25Department of Agricultural, Food, and Nutritional Science, University of Alberta, Edmonton, AB, Canada.
Caird E. Rexroad 3rd
26Office of National Programs, USDA ARS, 5601 Sunnyside Avenue, Beltsville, Maryland 20705-5148.
Matthew L. Rise
27Department of Ocean Sciences, Memorial University of Newfoundland, 1 Marine Lab Road, St. John’s, NL, A1C 5s7, Canada.
Rachael J. Ritchie
28Genome British Columbia, Suite 400 – 575, West 8th Avenue, Vancouver BC V5Z 0C4, Canada.
Simen R. Sandve
14Centre for Integrative Genetics (CIGENE), Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences, Ås NO-1432, Norway.
Patricia M. Schulte
29Department of Zoology, University of British Columbia, 6270 University Blvd., Vancouver, BC, V6T 1Z4, Canada.
Alfredo Tello
30Instituto Tecnológico del Salmón S.A., INTESAL de SalmonChile, Chile.
Rodrigo Vidal
31Laboratory of Molecular Ecology, Genomics, and Evolutionary Studies, Department of Biology, University of Santiago, Santiago 9170022, Chile.
Jon Olav Vik
14Centre for Integrative Genetics (CIGENE), Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences, Ås NO-1432, Norway.
Anna Wargelius
32Institute of Marine Research, P.O. Box 1870, Nordnes, NO-5817 Bergen, Norway.
José Manuel Yáñez
33Faculty of Veterinary and Animal Sciences, University of Chile, Av. Santa Rosa 11735, Santiago, Chile & Aquainnovo, Cardonal s/n, Puerto Montt, Chile.
Abstract
We describe an emerging initiative - the ‘Functional Analysis of All Salmonid Genomes’ (FAASG), which will leverage the extensive trait diversity that has evolved since a whole genome duplication event in the salmonid ancestor, to develop an integrative understanding of the functional genomic basis of phenotypic variation. The outcomes of FAASG will have diverse applications, ranging from improved understanding of genome evolution, through to improving the efficiency and sustainability of aquaculture production, supporting the future of fundamental and applied research in an iconic fish lineage of major societal importance.
List of abbreviations
- FAANG
- Functional Annotation of Animal Genomes
- FAASG
- Functional Annotation of All Salmonid Genomes
- WGD
- Whole genome duplication
Copyright
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
Posted December 20, 2016.
Functional Analysis of All Salmonid Genomes (FAASG): an international initiative supporting future salmonid research, conservation and aquaculture
Daniel J. Macqueen, Craig R. Primmer, Ross D. Houston, Barbara F. Nowak, Louis Bernatchez, Steinar Bergseth, William S. Davidson, Cristian Gallardo-Escárate, Tom Goldammer, Yann Guiguen, Patricia Iturra, James W. Kijas, Ben F. Koop, Sigbjørn Lien, Alejandro Maass, Samuel A.M. Martin, Philip McGinnity, Martin Montecino, Kerry A. Naish, Krista M. Nichols, Kristinn Ólafsson, Stig W. Omholt, Yniv Palti, Graham S. Plastow, Caird E. Rexroad 3rd, Matthew L. Rise, Rachael J. Ritchie, Simen R. Sandve, Patricia M. Schulte, Alfredo Tello, Rodrigo Vidal, Jon Olav Vik, Anna Wargelius, José Manuel Yáñez
bioRxiv 095737; doi: https://doi.org/10.1101/095737
Functional Analysis of All Salmonid Genomes (FAASG): an international initiative supporting future salmonid research, conservation and aquaculture
Daniel J. Macqueen, Craig R. Primmer, Ross D. Houston, Barbara F. Nowak, Louis Bernatchez, Steinar Bergseth, William S. Davidson, Cristian Gallardo-Escárate, Tom Goldammer, Yann Guiguen, Patricia Iturra, James W. Kijas, Ben F. Koop, Sigbjørn Lien, Alejandro Maass, Samuel A.M. Martin, Philip McGinnity, Martin Montecino, Kerry A. Naish, Krista M. Nichols, Kristinn Ólafsson, Stig W. Omholt, Yniv Palti, Graham S. Plastow, Caird E. Rexroad 3rd, Matthew L. Rise, Rachael J. Ritchie, Simen R. Sandve, Patricia M. Schulte, Alfredo Tello, Rodrigo Vidal, Jon Olav Vik, Anna Wargelius, José Manuel Yáñez
bioRxiv 095737; doi: https://doi.org/10.1101/095737
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