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A microsatellite baseline for genetic stock identification of European Atlantic salmon (Salmo salar L.)
John Gilbey,
Jamie Coughlan,
Vidar Wennevik,
Paulo Prodöhl,
Jamie R Stevens,
Carlos Garcia De Leaniz 
,
Dennis Ensing,
Eef Cauwelier,
Corrine Cherbonnel,
Sofia Consuegra,
Mark W Coulson,
Tom F Cross,
Walter Crozier,
Eileen Dillane,
Jonathan S Ellis,
Eva García-Vázquez,
Andrew M Griffiths,
Sigurdur Gudjonsson,
Kjetil Hindar,
Sten Karlsson,
David Knox,
Gonzalo Machado-Schiaffino,
Dorte Meldrup,
Einar Eg Nielsen,
Kristinn Ólafsson,
Craig R Primmer,
Sergey Prusov,
Lee Stradmeyer,
Juha-Pekka Vähä,
Alexey Je Veselov,
Lucy M I Webster,
Philip McGinnity,
Eric Verspoor,
Sofia Consuegra del Olmo
,
Dennis Ensing,
Eef Cauwelier,
Corrine Cherbonnel,
Sofia Consuegra,
Mark W Coulson,
Tom F Cross,
Walter Crozier,
Eileen Dillane,
Jonathan S Ellis,
Eva García-Vázquez,
Andrew M Griffiths,
Sigurdur Gudjonsson,
Kjetil Hindar,
Sten Karlsson,
David Knox,
Gonzalo Machado-Schiaffino,
Dorte Meldrup,
Einar Eg Nielsen,
Kristinn Ólafsson,
Craig R Primmer,
Sergey Prusov,
Lee Stradmeyer,
Juha-Pekka Vähä,
Alexey Je Veselov,
Lucy M I Webster,
Philip McGinnity,
Eric Verspoor,
Sofia Consuegra del Olmo
ICES Journal of Marine Science, Volume: 75, Issue: 2, Pages: 662 - 674
Swansea University Authors:
Carlos Garcia De Leaniz , Sofia Consuegra del Olmo
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DOI (Published version): 10.1093/icesjms/fsx184
Abstract
Atlantic salmon (Salmo salar L.) populations from different river origins mix in the North Atlantic during the marine life stage. To facilitate marine stock identification, we developed a genetic baseline covering the European component of the species’ range excluding the Baltic Sea, from the Russia...
| Published in: | ICES Journal of Marine Science |
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| ISSN: | 1054-3139 1095-9289 |
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2018
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<?xml version="1.0"?><rfc1807><datestamp>2018-07-06T18:44:13.2520347</datestamp><bib-version>v2</bib-version><id>39533</id><entry>2018-04-21</entry><title>A microsatellite baseline for genetic stock identification of European Atlantic salmon (Salmo salar L.)</title><swanseaauthors><author><sid>1c70acd0fd64edb0856b7cf34393ab02</sid><ORCID>0000-0003-1650-2729</ORCID><firstname>Carlos</firstname><surname>Garcia De Leaniz</surname><name>Carlos Garcia De Leaniz</name><active>true</active><ethesisStudent>false</ethesisStudent></author><author><sid>241f2810ab8f56be53ca8af23e384c6e</sid><ORCID>0000-0003-4403-2509</ORCID><firstname>Sofia</firstname><surname>Consuegra del Olmo</surname><name>Sofia Consuegra del Olmo</name><active>true</active><ethesisStudent>false</ethesisStudent></author></swanseaauthors><date>2018-04-21</date><deptcode>SBI</deptcode><abstract>Atlantic salmon (Salmo salar L.) populations from different river origins mix in the North Atlantic during the marine life stage. To facilitate marine stock identification, we developed a genetic baseline covering the European component of the species’ range excluding the Baltic Sea, from the Russian River Megra in the north-east, the Icelandic Ellidaar in the west, and the Spanish Ulla in the south, spanning 3737 km North to South and 2717 km East to West. The baseline encompasses data for 14 microsatellites for 26 822 individual fish from 13 countries, 282 rivers, and 467 sampling sites. A hierarchy of regional genetic assignment units was defined using a combination of distance-based and Bayesian clustering. At the top level, three assignment units were identified comprising northern, southern, and Icelandic regions. A second assignment level was also defined, comprising eighteen and twenty-nine regional units for accurate individual assignment and mixed stock estimates respectively. The baseline provides the most comprehensive geographical coverage for an Atlantic salmon genetic data-set, and a unique resource for the conservation and management of the species in Europe. It is freely available to researchers to facilitate identification of the natal origin of European salmon.</abstract><type>Journal Article</type><journal>ICES Journal of Marine Science</journal><volume>75</volume><journalNumber>2</journalNumber><paginationStart>662</paginationStart><paginationEnd>674</paginationEnd><publisher/><issnPrint>1054-3139</issnPrint><issnElectronic>1095-9289</issnElectronic><keywords>Atlantic salmon, genetic stock identification, individual assignment, marine ecology, microsatellites.</keywords><publishedDay>31</publishedDay><publishedMonth>3</publishedMonth><publishedYear>2018</publishedYear><publishedDate>2018-03-31</publishedDate><doi>10.1093/icesjms/fsx184</doi><url/><notes/><college>COLLEGE NANME</college><department>Biosciences</department><CollegeCode>COLLEGE CODE</CollegeCode><DepartmentCode>SBI</DepartmentCode><institution>Swansea University</institution><apcterm/><lastEdited>2018-07-06T18:44:13.2520347</lastEdited><Created>2018-04-21T17:38:53.3416741</Created><path><level id="1">Faculty of Science and Engineering</level><level id="2">School of Biosciences, Geography and Physics - Biosciences</level></path><authors><author><firstname>John</firstname><surname>Gilbey</surname><order>1</order></author><author><firstname>Jamie</firstname><surname>Coughlan</surname><order>2</order></author><author><firstname>Vidar</firstname><surname>Wennevik</surname><order>3</order></author><author><firstname>Paulo</firstname><surname>Prodöhl</surname><order>4</order></author><author><firstname>Jamie R</firstname><surname>Stevens</surname><order>5</order></author><author><firstname>Carlos</firstname><surname>Garcia De Leaniz</surname><orcid>0000-0003-1650-2729</orcid><order>6</order></author><author><firstname>Dennis</firstname><surname>Ensing</surname><order>7</order></author><author><firstname>Eef</firstname><surname>Cauwelier</surname><order>8</order></author><author><firstname>Corrine</firstname><surname>Cherbonnel</surname><order>9</order></author><author><firstname>Sofia</firstname><surname>Consuegra</surname><order>10</order></author><author><firstname>Mark W</firstname><surname>Coulson</surname><order>11</order></author><author><firstname>Tom F</firstname><surname>Cross</surname><order>12</order></author><author><firstname>Walter</firstname><surname>Crozier</surname><order>13</order></author><author><firstname>Eileen</firstname><surname>Dillane</surname><order>14</order></author><author><firstname>Jonathan S</firstname><surname>Ellis</surname><order>15</order></author><author><firstname>Eva</firstname><surname>García-Vázquez</surname><order>16</order></author><author><firstname>Andrew M</firstname><surname>Griffiths</surname><order>17</order></author><author><firstname>Sigurdur</firstname><surname>Gudjonsson</surname><order>18</order></author><author><firstname>Kjetil</firstname><surname>Hindar</surname><order>19</order></author><author><firstname>Sten</firstname><surname>Karlsson</surname><order>20</order></author><author><firstname>David</firstname><surname>Knox</surname><order>21</order></author><author><firstname>Gonzalo</firstname><surname>Machado-Schiaffino</surname><order>22</order></author><author><firstname>Dorte</firstname><surname>Meldrup</surname><order>23</order></author><author><firstname>Einar</firstname><surname>Eg Nielsen</surname><order>24</order></author><author><firstname>Kristinn</firstname><surname>Ólafsson</surname><order>25</order></author><author><firstname>Craig R</firstname><surname>Primmer</surname><order>26</order></author><author><firstname>Sergey</firstname><surname>Prusov</surname><order>27</order></author><author><firstname>Lee</firstname><surname>Stradmeyer</surname><order>28</order></author><author><firstname>Juha-Pekka</firstname><surname>Vähä</surname><order>29</order></author><author><firstname>Alexey Je</firstname><surname>Veselov</surname><order>30</order></author><author><firstname>Lucy M I</firstname><surname>Webster</surname><order>31</order></author><author><firstname>Philip</firstname><surname>McGinnity</surname><order>32</order></author><author><firstname>Eric</firstname><surname>Verspoor</surname><order>33</order></author><author><firstname>Sofia</firstname><surname>Consuegra del Olmo</surname><orcid>0000-0003-4403-2509</orcid><order>34</order></author></authors><documents><document><filename>0039533-21042018173957.pdf</filename><originalFilename>Gilbey_et_al_2017.pdf</originalFilename><uploaded>2018-04-21T17:39:57.9900000</uploaded><type>Output</type><contentLength>1170231</contentLength><contentType>application/pdf</contentType><version>Version of Record</version><cronfaStatus>true</cronfaStatus><embargoDate>2018-04-21T00:00:00.0000000</embargoDate><documentNotes>Publisher permission checked before making this paper open access.</documentNotes><copyrightCorrect>true</copyrightCorrect><language>eng</language></document></documents><OutputDurs/></rfc1807> |
| spelling |
2018-07-06T18:44:13.2520347 v2 39533 2018-04-21 A microsatellite baseline for genetic stock identification of European Atlantic salmon (Salmo salar L.) 1c70acd0fd64edb0856b7cf34393ab02 0000-0003-1650-2729 Carlos Garcia De Leaniz Carlos Garcia De Leaniz true false 241f2810ab8f56be53ca8af23e384c6e 0000-0003-4403-2509 Sofia Consuegra del Olmo Sofia Consuegra del Olmo true false 2018-04-21 SBI Atlantic salmon (Salmo salar L.) populations from different river origins mix in the North Atlantic during the marine life stage. To facilitate marine stock identification, we developed a genetic baseline covering the European component of the species’ range excluding the Baltic Sea, from the Russian River Megra in the north-east, the Icelandic Ellidaar in the west, and the Spanish Ulla in the south, spanning 3737 km North to South and 2717 km East to West. The baseline encompasses data for 14 microsatellites for 26 822 individual fish from 13 countries, 282 rivers, and 467 sampling sites. A hierarchy of regional genetic assignment units was defined using a combination of distance-based and Bayesian clustering. At the top level, three assignment units were identified comprising northern, southern, and Icelandic regions. A second assignment level was also defined, comprising eighteen and twenty-nine regional units for accurate individual assignment and mixed stock estimates respectively. The baseline provides the most comprehensive geographical coverage for an Atlantic salmon genetic data-set, and a unique resource for the conservation and management of the species in Europe. It is freely available to researchers to facilitate identification of the natal origin of European salmon. Journal Article ICES Journal of Marine Science 75 2 662 674 1054-3139 1095-9289 Atlantic salmon, genetic stock identification, individual assignment, marine ecology, microsatellites. 31 3 2018 2018-03-31 10.1093/icesjms/fsx184 COLLEGE NANME Biosciences COLLEGE CODE SBI Swansea University 2018-07-06T18:44:13.2520347 2018-04-21T17:38:53.3416741 Faculty of Science and Engineering School of Biosciences, Geography and Physics - Biosciences John Gilbey 1 Jamie Coughlan 2 Vidar Wennevik 3 Paulo Prodöhl 4 Jamie R Stevens 5 Carlos Garcia De Leaniz 0000-0003-1650-2729 6 Dennis Ensing 7 Eef Cauwelier 8 Corrine Cherbonnel 9 Sofia Consuegra 10 Mark W Coulson 11 Tom F Cross 12 Walter Crozier 13 Eileen Dillane 14 Jonathan S Ellis 15 Eva García-Vázquez 16 Andrew M Griffiths 17 Sigurdur Gudjonsson 18 Kjetil Hindar 19 Sten Karlsson 20 David Knox 21 Gonzalo Machado-Schiaffino 22 Dorte Meldrup 23 Einar Eg Nielsen 24 Kristinn Ólafsson 25 Craig R Primmer 26 Sergey Prusov 27 Lee Stradmeyer 28 Juha-Pekka Vähä 29 Alexey Je Veselov 30 Lucy M I Webster 31 Philip McGinnity 32 Eric Verspoor 33 Sofia Consuegra del Olmo 0000-0003-4403-2509 34 0039533-21042018173957.pdf Gilbey_et_al_2017.pdf 2018-04-21T17:39:57.9900000 Output 1170231 application/pdf Version of Record true 2018-04-21T00:00:00.0000000 Publisher permission checked before making this paper open access. true eng |
| title |
A microsatellite baseline for genetic stock identification of European Atlantic salmon (Salmo salar L.) |
| spellingShingle |
A microsatellite baseline for genetic stock identification of European Atlantic salmon (Salmo salar L.) Carlos Garcia De Leaniz Sofia Consuegra del Olmo |
| title_short |
A microsatellite baseline for genetic stock identification of European Atlantic salmon (Salmo salar L.) |
| title_full |
A microsatellite baseline for genetic stock identification of European Atlantic salmon (Salmo salar L.) |
| title_fullStr |
A microsatellite baseline for genetic stock identification of European Atlantic salmon (Salmo salar L.) |
| title_full_unstemmed |
A microsatellite baseline for genetic stock identification of European Atlantic salmon (Salmo salar L.) |
| title_sort |
A microsatellite baseline for genetic stock identification of European Atlantic salmon (Salmo salar L.) |
| author_id_str_mv |
1c70acd0fd64edb0856b7cf34393ab02 241f2810ab8f56be53ca8af23e384c6e |
| author_id_fullname_str_mv |
1c70acd0fd64edb0856b7cf34393ab02_***_Carlos Garcia De Leaniz 241f2810ab8f56be53ca8af23e384c6e_***_Sofia Consuegra del Olmo |
| author |
Carlos Garcia De Leaniz Sofia Consuegra del Olmo |
| author2 |
John Gilbey Jamie Coughlan Vidar Wennevik Paulo Prodöhl Jamie R Stevens Carlos Garcia De Leaniz Dennis Ensing Eef Cauwelier Corrine Cherbonnel Sofia Consuegra Mark W Coulson Tom F Cross Walter Crozier Eileen Dillane Jonathan S Ellis Eva García-Vázquez Andrew M Griffiths Sigurdur Gudjonsson Kjetil Hindar Sten Karlsson David Knox Gonzalo Machado-Schiaffino Dorte Meldrup Einar Eg Nielsen Kristinn Ólafsson Craig R Primmer Sergey Prusov Lee Stradmeyer Juha-Pekka Vähä Alexey Je Veselov Lucy M I Webster Philip McGinnity Eric Verspoor Sofia Consuegra del Olmo |
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Journal article |
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ICES Journal of Marine Science |
| container_volume |
75 |
| container_issue |
2 |
| container_start_page |
662 |
| publishDate |
2018 |
| institution |
Swansea University |
| issn |
1054-3139 1095-9289 |
| doi_str_mv |
10.1093/icesjms/fsx184 |
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Faculty of Science and Engineering |
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facultyofscienceandengineering |
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Faculty of Science and Engineering |
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Faculty of Science and Engineering |
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School of Biosciences, Geography and Physics - Biosciences{{{_:::_}}}Faculty of Science and Engineering{{{_:::_}}}School of Biosciences, Geography and Physics - Biosciences |
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| description |
Atlantic salmon (Salmo salar L.) populations from different river origins mix in the North Atlantic during the marine life stage. To facilitate marine stock identification, we developed a genetic baseline covering the European component of the species’ range excluding the Baltic Sea, from the Russian River Megra in the north-east, the Icelandic Ellidaar in the west, and the Spanish Ulla in the south, spanning 3737 km North to South and 2717 km East to West. The baseline encompasses data for 14 microsatellites for 26 822 individual fish from 13 countries, 282 rivers, and 467 sampling sites. A hierarchy of regional genetic assignment units was defined using a combination of distance-based and Bayesian clustering. At the top level, three assignment units were identified comprising northern, southern, and Icelandic regions. A second assignment level was also defined, comprising eighteen and twenty-nine regional units for accurate individual assignment and mixed stock estimates respectively. The baseline provides the most comprehensive geographical coverage for an Atlantic salmon genetic data-set, and a unique resource for the conservation and management of the species in Europe. It is freely available to researchers to facilitate identification of the natal origin of European salmon. |
| published_date |
2018-03-31T03:50:13Z |
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1763752451479961600 |
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11.016235 |