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Research article - Peer-reviewed, 2022

A baseline for the genetic stock identification of Atlantic herring, Clupea harengus, in ICES Divisions 6.a, 7.b-c

Farrell, Edward D. D.; Andersson, Leif; Bekkevold, Dorte; Campbell, Neil; Carlsson, Jens; Clarke, Maurice W. W.; Egan, Afra; Folkvord, Arild; Gras, Michael; Lusseau, Susan Maersk; Mackinson, Steven; Nolan, Cormac; O'Connell, Steven; O'Malley, Michael; Pastoors, Martin; Pettersson, Mats E. E.; White, Emma


Atlantic herring in International Council for Exploration of the Sea (ICES) Divisions 6.a, 7.b-c comprises at least three populations, distinguished by temporal and spatial differences in spawning, which have until recently been managed as two stocks defined by geographical delineators. Outside of spawning the populations form mixed aggregations, which are the subject of acoustic surveys. The inability to distinguish the populations has prevented the development of separate survey indices and separate stock assessments. A panel of 45 single-nucleotide polymorphisms, derived from whole-genome sequencing, were used to genotype 3480 baseline spawning samples (2014-2021). A temporally stable baseline comprising 2316 herring from populations known to inhabit Division 6.a was used to develop a genetic assignment method, with a self-assignment accuracy greater than 90%. The long-term temporal stability of the assignment model was validated by assigning archive (2003-2004) baseline samples (270 individuals) with a high level of accuracy. Assignment of non-baseline samples (1514 individuals) from Divisions 6.a, 7.b-c indicated previously unrecognized levels of mixing of populations outside of the spawning season. The genetic markers and assignment models presented constitute a 'toolbox' that can be used for the assignment of herring caught in mixed survey and commercial catches in Division 6.a into their population of origin with a high level of accuracy.


fisheries; management; genetic assignment; stock identification; Northwest herring; West of Scotland herring

Published in

Royal Society Open Science
2022, volume: 9, number: 9, article number: 220453
Publisher: ROYAL SOC

Authors' information

Farrell, Edward D. D.
University College Dublin
Andersson, Leif
Uppsala University
Texas AandM University College Station
Andersson, Leif
Swedish University of Agricultural Sciences, Department of Animal Breeding and Genetics
Bekkevold, Dorte
Technical University of Denmark
Carlsson, Jens
University College Dublin
Clarke, Maurice W. W.
Marine Institute Ireland
Egan, Afra
Marine Institute Ireland
Folkvord, Arild
University of Bergen
Gras, Michael
Marine Institute Ireland
Gras, Michael
European Commission Joint Research Centre
Maersk Lusseau, Susan
Marine Scotland
Mackinson, Steven
Scottish Pelag Fishermens Assoc
Nolan, Cormac
Marine Institute Ireland
O’Connell, Steven
Marine Scotland Science
O'Malley, Michael
Marine Institute Ireland
Pastoors, Martin
Pelag Freezer Trawler Assoc
Pettersson, Mats E. E.
Uppsala University
White, Emma
Marine Institute Ireland

UKÄ Subject classification

Fish and Wildlife Management
Fish and Aquacultural Science

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