Functional Annotation of All Salmonid Genomes (FAASG): an international initiative supporting future salmonid research, conservation and aquaculture
Identifieur interne : 004A50 ( Ncbi/Checkpoint ); précédent : 004A49; suivant : 004A51Functional Annotation of All Salmonid Genomes (FAASG): an international initiative supporting future salmonid research, conservation and aquaculture
Auteurs : Daniel J. Macqueen ; Craig R. Primmer [Finlande] ; Ross D. Houston ; Barbara F. Nowak ; Louis Bernatchez ; Steinar Bergseth [Norvège] ; William S. Davidson ; Cristian Gallardo-Escárate [Chili] ; Tom Goldammer [Allemagne] ; Yann Guiguen [France] ; Patricia Iturra [Chili] ; James W. Kijas [Australie] ; Ben F. Koop ; Sigbj Rn Lien [Norvège] ; Alejandro Maass [Chili] ; Samuel A. M. Martin ; Philip Mcginnity [Irlande (pays)] ; Martin Montecino [Chili] ; Kerry A. Naish [États-Unis] ; Krista M. Nichols [États-Unis] ; Kristinn Lafsson [Islande] ; Stig W. Omholt [Norvège] ; Yniv Palti [États-Unis] ; Graham S. Plastow ; Caird E. Rexroad [États-Unis] ; Matthew L. Rise ; Rachael J. Ritchie ; Simen R. Sandve [Norvège] ; Patricia M. Schulte ; Alfredo Tello [Chili] ; Rodrigo Vidal [Chili] ; Jon Olav Vik [Norvège] ; Anna Wargelius [Norvège] ; José Manuel Yá Ez [Chili]Source :
- BMC Genomics [ 1471-2164 ] ; 2017.
Abstract
We describe an emerging initiative - the ‘Functional Annotation 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, 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.
The online version of this article (doi:10.1186/s12864-017-3862-8) contains supplementary material, which is available to authorized users.
Url:
DOI: 10.1186/s12864-017-3862-8
PubMed: 28655320
PubMed Central: 5488370
Affiliations:
- Allemagne, Australie, Chili, Finlande, France, Irlande (pays), Islande, Norvège, États-Unis
- Maryland, Virginie-Occidentale, Washington (État)
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Box 1870, Nordnes, NO-5817 Bergen, Norway</nlm:aff><country xml:lang="fr">Norvège</country><wicri:regionArea>P.O. Box 1870, Nordnes, NO-5817 Bergen</wicri:regionArea><wicri:noRegion>NO-5817 Bergen</wicri:noRegion></affiliation></author><author><name sortKey="Ya Ez, Jose Manuel" sort="Ya Ez, Jose Manuel" uniqKey="Ya Ez J" first="José Manuel" last="Yá Ez">José Manuel Yá Ez</name><affiliation wicri:level="1"><nlm:aff id="Aff33"><institution-wrap><institution-id institution-id-type="ISNI">0000 0004 0385 4466</institution-id><institution-id institution-id-type="GRID">grid.443909.3</institution-id><institution>Faculty of Veterinary and Animal Sciences,</institution><institution>University of Chile,</institution></institution-wrap>Av. Santa Rosa 11735, Santiago, Chile & Aquainnovo, Cardonal s/n, Puerto Montt, Chile</nlm:aff><country xml:lang="fr">Chili</country><wicri:regionArea>Av. Santa Rosa 11735, Santiago, Chile & Aquainnovo, Cardonal s/n, Puerto Montt</wicri:regionArea><wicri:noRegion>Puerto Montt</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">28655320</idno><idno type="pmc">5488370</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5488370</idno><idno type="RBID">PMC:5488370</idno><idno type="doi">10.1186/s12864-017-3862-8</idno><date when="2017">2017</date><idno type="wicri:Area/Pmc/Corpus">000970</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000970</idno><idno type="wicri:Area/Pmc/Curation">000948</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000948</idno><idno type="wicri:Area/Pmc/Checkpoint">000306</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Checkpoint">000306</idno><idno type="wicri:source">PubMed</idno><idno type="wicri:Area/PubMed/Corpus">000A94</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">000A94</idno><idno type="wicri:Area/PubMed/Curation">000A91</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">000A91</idno><idno type="wicri:Area/PubMed/Checkpoint">000A91</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">000A91</idno><idno type="wicri:Area/Ncbi/Merge">004A50</idno><idno type="wicri:Area/Ncbi/Curation">004A50</idno><idno type="wicri:Area/Ncbi/Checkpoint">004A50</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Functional Annotation of All Salmonid Genomes (FAASG): an international initiative supporting future salmonid research, conservation and aquaculture</title><author><name sortKey="Macqueen, Daniel J" sort="Macqueen, Daniel J" uniqKey="Macqueen D" first="Daniel J." last="Macqueen">Daniel J. Macqueen</name><affiliation><nlm:aff id="Aff1"><institution-wrap><institution-id institution-id-type="ISNI">0000 0004 1936 7291</institution-id><institution-id institution-id-type="GRID">grid.7107.1</institution-id><institution>Institute of Biological and Environmental Sciences,</institution><institution>University of Aberdeen,</institution></institution-wrap>Aberdeen, AB24 2TZ UK</nlm:aff><wicri:noCountry code="subfield">AB24 2TZ UK</wicri:noCountry></affiliation></author><author><name sortKey="Primmer, Craig R" sort="Primmer, Craig R" uniqKey="Primmer C" first="Craig R." last="Primmer">Craig R. 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Houston</name><affiliation><nlm:aff id="Aff3"><institution-wrap><institution-id institution-id-type="ISNI">0000 0004 1936 7988</institution-id><institution-id institution-id-type="GRID">grid.4305.2</institution-id><institution>The Roslin Institute and Royal (Dick) School of Veterinary Studies,</institution><institution>The University of Edinburgh,</institution></institution-wrap>Midlothian, EH25 9RG UK</nlm:aff><wicri:noCountry code="subfield">EH25 9RG UK</wicri:noCountry></affiliation></author><author><name sortKey="Nowak, Barbara F" sort="Nowak, Barbara F" uniqKey="Nowak B" first="Barbara F." last="Nowak">Barbara F. 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Box 564, NO-1327 Lysaker, Norway</nlm:aff><country xml:lang="fr">Norvège</country><wicri:regionArea>Drammensveien 288, P.O. Box 564, NO-1327 Lysaker</wicri:regionArea><wicri:noRegion>NO-1327 Lysaker</wicri:noRegion></affiliation></author><author><name sortKey="Davidson, William S" sort="Davidson, William S" uniqKey="Davidson W" first="William S." last="Davidson">William S. 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Kijas</name><affiliation wicri:level="1"><nlm:aff id="Aff12">CSIRO Agriculture, QLD, St Lucia, 4067 Australia</nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea>CSIRO Agriculture, QLD, St Lucia</wicri:regionArea><wicri:noRegion>St Lucia</wicri:noRegion></affiliation></author><author><name sortKey="Koop, Ben F" sort="Koop, Ben F" uniqKey="Koop B" first="Ben F." last="Koop">Ben F. 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Martin</name><affiliation><nlm:aff id="Aff1"><institution-wrap><institution-id institution-id-type="ISNI">0000 0004 1936 7291</institution-id><institution-id institution-id-type="GRID">grid.7107.1</institution-id><institution>Institute of Biological and Environmental Sciences,</institution><institution>University of Aberdeen,</institution></institution-wrap>Aberdeen, AB24 2TZ UK</nlm:aff><wicri:noCountry code="subfield">AB24 2TZ UK</wicri:noCountry></affiliation></author><author><name sortKey="Mcginnity, Philip" sort="Mcginnity, Philip" uniqKey="Mcginnity P" first="Philip" last="Mcginnity">Philip Mcginnity</name><affiliation wicri:level="1"><nlm:aff id="Aff17"><institution-wrap><institution-id institution-id-type="ISNI">0000000123318773</institution-id><institution-id institution-id-type="GRID">grid.7872.a</institution-id><institution>School of Biological, Earth and Environmental Sciences,</institution><institution>University College Cork,</institution></institution-wrap>Cork, Ireland</nlm:aff><country xml:lang="fr">Irlande (pays)</country><wicri:regionArea>Cork</wicri:regionArea></affiliation></author><author><name sortKey="Montecino, Martin" sort="Montecino, Martin" uniqKey="Montecino M" first="Martin" last="Montecino">Martin Montecino</name><affiliation wicri:level="1"><nlm:aff id="Aff18"><institution-wrap><institution-id institution-id-type="ISNI">0000 0001 2156 804X</institution-id><institution-id institution-id-type="GRID">grid.412848.3</institution-id><institution>Center for Biomedical Research,</institution><institution>Universidad Andres Bello,</institution></institution-wrap>8370146 Santiago, Chile</nlm:aff><country xml:lang="fr">Chili</country><wicri:regionArea>8370146 Santiago</wicri:regionArea></affiliation><affiliation wicri:level="1"><nlm:aff id="Aff19"><institution-wrap><institution-id institution-id-type="ISNI">0000 0001 2156 804X</institution-id><institution-id institution-id-type="GRID">grid.412848.3</institution-id><institution>FONDAP Center for Genome Regulation, Faculty of Biological Sciences and Faculty of Medicine,</institution><institution>Universidad Andres Bello,</institution></institution-wrap>8370146 Santiago, Chile</nlm:aff><country xml:lang="fr">Chili</country><wicri:regionArea>8370146 Santiago</wicri:regionArea></affiliation></author><author><name sortKey="Naish, Kerry A" sort="Naish, Kerry A" uniqKey="Naish K" first="Kerry A." last="Naish">Kerry A. 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Plastow</name><affiliation><nlm:aff id="Aff25"><institution-wrap><institution-id institution-id-type="GRID">grid.17089.37</institution-id><institution>Department of Agricultural, Food, and Nutritional Science,</institution><institution>University of Alberta,</institution></institution-wrap>Edmonton, AB Canada</nlm:aff><wicri:noCountry code="subfield">AB Canada</wicri:noCountry></affiliation></author><author><name sortKey="Rexroad, Caird E" sort="Rexroad, Caird E" uniqKey="Rexroad C" first="Caird E." last="Rexroad">Caird E. Rexroad</name><affiliation wicri:level="2"><nlm:aff id="Aff26"><institution-wrap><institution-id institution-id-type="ISNI">0000 0004 0404 0958</institution-id><institution-id institution-id-type="GRID">grid.463419.d</institution-id><institution>Office of National Programs,</institution><institution>USDA ARS,</institution></institution-wrap>5601 Sunnyside Avenue, Beltsville, MD 20705-5148 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Maryland</region></placeName><wicri:cityArea>5601 Sunnyside Avenue, Beltsville</wicri:cityArea></affiliation></author><author><name sortKey="Rise, Matthew L" sort="Rise, Matthew L" uniqKey="Rise M" first="Matthew L." last="Rise">Matthew L. Rise</name><affiliation><nlm:aff id="Aff27"><institution-wrap><institution-id institution-id-type="ISNI">0000 0000 9130 6822</institution-id><institution-id institution-id-type="GRID">grid.25055.37</institution-id><institution>Department of Ocean Sciences,</institution><institution>Memorial University of Newfoundland,</institution></institution-wrap>1 Marine Lab Road, St. John’s, NL A1C 5S7 Canada</nlm:aff><wicri:noCountry code="subfield">NL A1C 5S7 Canada</wicri:noCountry></affiliation></author><author><name sortKey="Ritchie, Rachael J" sort="Ritchie, Rachael J" uniqKey="Ritchie R" first="Rachael J." last="Ritchie">Rachael J. Ritchie</name><affiliation><nlm:aff id="Aff28"><institution-wrap><institution-id institution-id-type="ISNI">0000 0000 9336 0638</institution-id><institution-id institution-id-type="GRID">grid.453288.0</institution-id><institution></institution><institution>Genome British Columbia,</institution></institution-wrap>Suite 400 – 575, West 8th Avenue, Vancouver, BC V5Z 0C4 Canada</nlm:aff><wicri:noCountry code="subfield">BC V5Z 0C4 Canada</wicri:noCountry></affiliation></author><author><name sortKey="Sandve, Simen R" sort="Sandve, Simen R" uniqKey="Sandve S" first="Simen R." last="Sandve">Simen R. Sandve</name><affiliation wicri:level="1"><nlm:aff id="Aff14"><institution-wrap><institution-id institution-id-type="ISNI">0000 0004 0607 975X</institution-id><institution-id institution-id-type="GRID">grid.19477.3c</institution-id><institution>Centre for Integrative Genetics (CIGENE), Department of Animal and Aquacultural Sciences,</institution><institution>Norwegian University of Life Sciences,</institution></institution-wrap>NO-1432 Ås, Norway</nlm:aff><country xml:lang="fr">Norvège</country><wicri:regionArea>NO-1432 Ås</wicri:regionArea></affiliation></author><author><name sortKey="Schulte, Patricia M" sort="Schulte, Patricia M" uniqKey="Schulte P" first="Patricia M." last="Schulte">Patricia M. Schulte</name><affiliation><nlm:aff id="Aff29"><institution-wrap><institution-id institution-id-type="ISNI">0000 0001 2288 9830</institution-id><institution-id institution-id-type="GRID">grid.17091.3e</institution-id><institution>Department of Zoology,</institution><institution>University of British Columbia,</institution></institution-wrap>6270 University Blvd, Vancouver, BC V6T 1Z4 Canada</nlm:aff><wicri:noCountry code="subfield">BC V6T 1Z4 Canada</wicri:noCountry></affiliation></author><author><name sortKey="Tello, Alfredo" sort="Tello, Alfredo" uniqKey="Tello A" first="Alfredo" last="Tello">Alfredo Tello</name><affiliation wicri:level="1"><nlm:aff id="Aff30">Instituto Tecnológico del Salmón S.A., INTESAL de SalmonChile, Puerto Montt, Chile</nlm:aff><country xml:lang="fr">Chili</country><wicri:regionArea>Instituto Tecnológico del Salmón S.A., INTESAL de SalmonChile, Puerto Montt</wicri:regionArea><wicri:noRegion>Puerto Montt</wicri:noRegion></affiliation></author><author><name sortKey="Vidal, Rodrigo" sort="Vidal, Rodrigo" uniqKey="Vidal R" first="Rodrigo" last="Vidal">Rodrigo Vidal</name><affiliation wicri:level="1"><nlm:aff id="Aff31"><institution-wrap><institution-id institution-id-type="ISNI">0000 0001 2191 5013</institution-id><institution-id institution-id-type="GRID">grid.412179.8</institution-id><institution>Laboratory of Molecular Ecology, Genomics, and Evolutionary Studies, Department of Biology,</institution><institution>University of Santiago,</institution></institution-wrap>9170022 Santiago, Chile</nlm:aff><country xml:lang="fr">Chili</country><wicri:regionArea>9170022 Santiago</wicri:regionArea></affiliation></author><author><name sortKey="Vik, Jon Olav" sort="Vik, Jon Olav" uniqKey="Vik J" first="Jon Olav" last="Vik">Jon Olav Vik</name><affiliation wicri:level="1"><nlm:aff id="Aff14"><institution-wrap><institution-id institution-id-type="ISNI">0000 0004 0607 975X</institution-id><institution-id institution-id-type="GRID">grid.19477.3c</institution-id><institution>Centre for Integrative Genetics (CIGENE), Department of Animal and Aquacultural Sciences,</institution><institution>Norwegian University of Life Sciences,</institution></institution-wrap>NO-1432 Ås, Norway</nlm:aff><country xml:lang="fr">Norvège</country><wicri:regionArea>NO-1432 Ås</wicri:regionArea></affiliation></author><author><name sortKey="Wargelius, Anna" sort="Wargelius, Anna" uniqKey="Wargelius A" first="Anna" last="Wargelius">Anna Wargelius</name><affiliation wicri:level="1"><nlm:aff id="Aff32"><institution-wrap><institution-id institution-id-type="ISNI">0000 0004 0427 3161</institution-id><institution-id institution-id-type="GRID">grid.10917.3e</institution-id><institution></institution><institution>Institute of Marine Research,</institution></institution-wrap>P.O. Box 1870, Nordnes, NO-5817 Bergen, Norway</nlm:aff><country xml:lang="fr">Norvège</country><wicri:regionArea>P.O. Box 1870, Nordnes, NO-5817 Bergen</wicri:regionArea><wicri:noRegion>NO-5817 Bergen</wicri:noRegion></affiliation></author><author><name sortKey="Ya Ez, Jose Manuel" sort="Ya Ez, Jose Manuel" uniqKey="Ya Ez J" first="José Manuel" last="Yá Ez">José Manuel Yá Ez</name><affiliation wicri:level="1"><nlm:aff id="Aff33"><institution-wrap><institution-id institution-id-type="ISNI">0000 0004 0385 4466</institution-id><institution-id institution-id-type="GRID">grid.443909.3</institution-id><institution>Faculty of Veterinary and Animal Sciences,</institution><institution>University of Chile,</institution></institution-wrap>Av. Santa Rosa 11735, Santiago, Chile & Aquainnovo, Cardonal s/n, Puerto Montt, Chile</nlm:aff><country xml:lang="fr">Chili</country><wicri:regionArea>Av. Santa Rosa 11735, Santiago, Chile & Aquainnovo, Cardonal s/n, Puerto Montt</wicri:regionArea><wicri:noRegion>Puerto Montt</wicri:noRegion></affiliation></author></analytic><series><title level="j">BMC Genomics</title><idno type="eISSN">1471-2164</idno><imprint><date when="2017">2017</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p id="Par1">We describe an emerging initiative - the ‘Functional Annotation 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, 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.</p><sec><title>Electronic supplementary material</title><p>The online version of this article (doi:10.1186/s12864-017-3862-8) contains supplementary material, which is available to authorized users.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Davidson, Ws" uniqKey="Davidson W">WS Davidson</name></author><author><name sortKey="Koop, Bf" uniqKey="Koop B">BF Koop</name></author><author><name sortKey="Jones, Sj" uniqKey="Jones S">SJ Jones</name></author><author><name sortKey="Iturra, P" uniqKey="Iturra P">P Iturra</name></author><author><name sortKey="Vidal, R" uniqKey="Vidal R">R Vidal</name></author><author><name sortKey="Maass, 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Omholt</name><name sortKey="Omholt, Stig W" sort="Omholt, Stig W" uniqKey="Omholt S" first="Stig W." last="Omholt">Stig W. Omholt</name><name sortKey="Sandve, Simen R" sort="Sandve, Simen R" uniqKey="Sandve S" first="Simen R." last="Sandve">Simen R. Sandve</name><name sortKey="Vik, Jon Olav" sort="Vik, Jon Olav" uniqKey="Vik J" first="Jon Olav" last="Vik">Jon Olav Vik</name><name sortKey="Wargelius, Anna" sort="Wargelius, Anna" uniqKey="Wargelius A" first="Anna" last="Wargelius">Anna Wargelius</name></country><country name="Chili"><noRegion><name sortKey="Gallardo Escarate, Cristian" sort="Gallardo Escarate, Cristian" uniqKey="Gallardo Escarate C" first="Cristian" last="Gallardo-Escárate">Cristian Gallardo-Escárate</name></noRegion><name sortKey="Iturra, Patricia" sort="Iturra, Patricia" uniqKey="Iturra P" first="Patricia" last="Iturra">Patricia Iturra</name><name sortKey="Maass, Alejandro" sort="Maass, Alejandro" uniqKey="Maass A" first="Alejandro" last="Maass">Alejandro Maass</name><name sortKey="Maass, Alejandro" sort="Maass, Alejandro" uniqKey="Maass A" first="Alejandro" last="Maass">Alejandro Maass</name><name sortKey="Montecino, Martin" sort="Montecino, Martin" uniqKey="Montecino M" first="Martin" last="Montecino">Martin Montecino</name><name sortKey="Montecino, Martin" sort="Montecino, Martin" uniqKey="Montecino M" first="Martin" last="Montecino">Martin Montecino</name><name sortKey="Tello, Alfredo" sort="Tello, Alfredo" uniqKey="Tello A" first="Alfredo" last="Tello">Alfredo Tello</name><name sortKey="Vidal, Rodrigo" sort="Vidal, Rodrigo" uniqKey="Vidal R" first="Rodrigo" last="Vidal">Rodrigo Vidal</name><name sortKey="Ya Ez, Jose Manuel" sort="Ya Ez, Jose Manuel" uniqKey="Ya Ez J" first="José Manuel" last="Yá Ez">José Manuel Yá Ez</name></country><country name="Allemagne"><noRegion><name sortKey="Goldammer, Tom" sort="Goldammer, Tom" uniqKey="Goldammer T" first="Tom" last="Goldammer">Tom Goldammer</name></noRegion></country><country name="France"><noRegion><name sortKey="Guiguen, Yann" sort="Guiguen, Yann" uniqKey="Guiguen Y" first="Yann" last="Guiguen">Yann Guiguen</name></noRegion></country><country name="Australie"><noRegion><name sortKey="Kijas, James W" sort="Kijas, James W" uniqKey="Kijas J" first="James W." last="Kijas">James W. Kijas</name></noRegion></country><country name="Irlande (pays)"><noRegion><name sortKey="Mcginnity, Philip" sort="Mcginnity, Philip" uniqKey="Mcginnity P" first="Philip" last="Mcginnity">Philip Mcginnity</name></noRegion></country><country name="États-Unis"><region name="Washington (État)"><name sortKey="Naish, Kerry A" sort="Naish, Kerry A" uniqKey="Naish K" first="Kerry A." last="Naish">Kerry A. Naish</name></region><name sortKey="Nichols, Krista M" sort="Nichols, Krista M" uniqKey="Nichols K" first="Krista M." last="Nichols">Krista M. Nichols</name><name sortKey="Palti, Yniv" sort="Palti, Yniv" uniqKey="Palti Y" first="Yniv" last="Palti">Yniv Palti</name><name sortKey="Rexroad, Caird E" sort="Rexroad, Caird E" uniqKey="Rexroad C" first="Caird E." last="Rexroad">Caird E. Rexroad</name></country><country name="Islande"><noRegion><name sortKey=" Lafsson, Kristinn" sort=" Lafsson, Kristinn" uniqKey=" Lafsson K" first="Kristinn" last=" Lafsson">Kristinn Lafsson</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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|texte= Functional Annotation of All Salmonid Genomes (FAASG): an international initiative supporting future salmonid research, conservation and aquaculture
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