Distinct genetic clustering in the weakly differentiated polar cod, Boreogadus saida Lepechin, 1774 from East Siberian Sea to Svalbard

Quintela, María; Bhat, S. R.; Præbel, Kim; Гордеева, Н. В.; Seljestad, Gaute W.; Hanebrekke, Tanja; Mateos‐Rivera, Alejandro; Vikebø, Frode; Zelenina, D. A.; Cheng, C.‐H. Christina; Johansen, Torild

doi:10.1007/s00300-021-02911-7

Cited by 11 publications

(11 citation statements)

References 104 publications

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“…Alternatively, genetic division could have arisen from different breeding times or due to assortative mating (Potkamp and Fransen, 2019). Similar cryptic genetic subdivisions have recently been described for northern shrimp ( Pandalus borealis (Hansen et al, 2021)) and polar cod ( Boreogadus saida (Quintela et al, 2021). We ruled out the inherent weakness of clustering analyses favoring solution K =2 (Quintela et al, 2014; Janes et al, 2017) as a plausible explanation for the observed two-cluster model in the Arctic, as well as for mainland Norway (see below) for several reasons: First, groupings were far from equal in size nor were they randomly distributed but constantly found within certain samples.…”

Section: Discussionsupporting

confidence: 77%

Global, regional, and cryptic population structure in a high gene-flow transatlantic fish

Jansson

Faust

Bekkevold

et al. 2022

Preprint

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Lumpfish (Cyclopterus lumpus) is a transatlantic marine fish displaying large population sizes and a high potential for dispersal and gene-flow. These features are expected to result in weak population structure. Here, we investigated population genetic structure of lumpfish throughout its natural distribution in the North Atlantic using two approaches: I) 4393 genome wide SNPs and 95 individuals from 10 locations, and II) 139 discriminatory SNPs and 1,669 individuals from 40 locations. Both approaches identified extensive population genetic structuring with a major split between the East and West Atlantic and a distinct Baltic Sea population, as well as further differentiation of lumpfish from the English Channel, Iceland, and Greenland. The targeted discriminatory loci displayed ~2-5 times higher divergence than the genome wide approach, revealing further evidence of local population substructures. Lumpfish from Isfjorden in Svalbard were highly distinct but resembled most fish from Greenland. The Kattegat area in the Baltic transition zone, formed a previously undescribed distinct genetic group. Also, further subdivision was detected within North America, Iceland, West Greenland, Barents Sea, and Norway. Although lumpfish have considerable potential for dispersal and gene-flow, the observed high levels of population structuring throughout the Atlantic suggests that this species displays natal homing and potentially local populations with adaptive differences. This fine-scale population structure calls for consideration when defining management units for lumpfish fishing stocks and in decisions related to sourcing and moving lumpfish for farming and cleaner fish use.

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Section: Discussionsupporting

confidence: 77%

Global, regional, and cryptic population structure in a high gene-flow transatlantic fish

Jansson

Faust

Bekkevold

et al. 2022

Preprint

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“…Alternatively, the genetic division could have arisen from different breeding times or from assortative mating [ 99 ]. Similar cryptic genetic subdivisions have recently been described for northern shrimp ( Pandalus borealis [ 100 ]) and polar cod ( Boreogadus saida [ 101 ]. We ruled out the inherent weakness of clustering analyses favoring solution K = 2 [ 102 , 103 ] as a plausible explanation for the observed two-cluster model in the Arctic, as well as for mainland Norway (see below) for several reasons: First, groupings were far from equal in size nor were they randomly distributed but constantly found within certain samples.…”

Section: Discussionsupporting

confidence: 71%

Global, regional, and cryptic population structure in a high gene-flow transatlantic fish

et al. 2023

Self Cite

View full text Add to dashboard Cite

Lumpfish (Cyclopterus lumpus) is a transatlantic marine fish displaying large population sizes and a high potential for dispersal and gene-flow. These features are expected to result in weak population structure. Here, we investigated population genetic structure of lumpfish throughout its natural distribution in the North Atlantic using two approaches: I) 4,393 genome wide SNPs and 95 individuals from 10 locations, and II) 139 discriminatory SNPs and 1,669 individuals from 40 locations. Both approaches identified extensive population genetic structuring with a major split between the East and West Atlantic and a distinct Baltic Sea population, as well as further differentiation of lumpfish from the English Channel, Iceland, and Greenland. The discriminatory loci displayed ~2–5 times higher divergence than the genome wide approach, revealing further evidence of local population substructures. Lumpfish from Isfjorden in Svalbard were highly distinct but resembled most fish from Greenland. The Kattegat area in the Baltic transition zone, formed a previously undescribed distinct genetic group. Also, further subdivision was detected within North America, Iceland, West Greenland, Barents Sea, and Norway. Although lumpfish have considerable potential for dispersal and gene-flow, the observed high levels of population structuring throughout the Atlantic suggests that this species may have a natal homing behavior and local populations with adaptive differences. This fine-scale population structure calls for consideration when defining management units for exploitation of lumpfish stocks and in decisions related to sourcing and moving lumpfish for cleaner fish use in salmonid aquaculture.

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“…We identified four studies that met our criteria for inclusion, all of which were published within the last three years (Table 1). These studies targeted Pacific herring Clupea pallasii (Orlova et al, 2021;Petrou et al, 2021), polar/Arctic cod Boreogadus saida (Quintela et al, 2021), and Japanese anchovy Engraulis japonicus (Zhang et al, 2020), representing a fraction of the taxonomic diversity of forage fishes in the North Pacific as defined by AFSC (>50 species; 50 CFR Part 679). Of the four studies we reviewed, one lacked sufficient collection date information, providing only the year of sample collection, and sample collection depth was absent from all four studies.…”

Section: A Paucity Of Genomic Datamentioning

confidence: 99%

“…The investment that has gone into generating genomic data (Zhang et al, 2020;Orlova et al, 2021;Petrou et al, 2021;Quintela et al, 2021) and recording environmental observations in the North Pacific (AOOS, WOD, WorldClim) offers a novel opportunity to investigate GEAs post hoc. When investigating GEAs is not the explicit objective of a population genomics study, the collection of real-time environmental measures is frequently infeasible.…”

Section: Opportunities For Post Hoc Extensionmentioning

confidence: 99%

The untapped potential of seascape genomics in the North Pacific

Timm,

Tucker,

Rix

et al. 2023

Front. Conserv. Sci.

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Seascape genomics provides a powerful framework to evaluate the presence and strength of environmental pressures on marine organisms, as well as to forecast long term species stability under various perturbations. In the highly productive North Pacific, forage fishes, key trophic links across ecosystems, are also contending with a rapidly warming climate and a litany of associated oceanographic changes (e.g., changes in salinity, dissolved oxygen, pH, primary production, etc.). These changes can place substantial selective pressures on populations over space and time. While several population genomics studies have targeted forage fishes in the North Pacific, none have formally analyzed the interactions between genotype and environment. However, when population genomics studies provide collection location information and other critical data, it is possible to supplement a published genomic dataset with environmental data from existing public databases and perform “post hoc seascape genomics” analyses. In reviewing the literature, we find pertinent metadata (dates and locations of sample collection) are rarely provided. We identify specific factors that may impede the application of seascape genomics methods in the North Pacific. Finally, we present an approach for supplementing data in a reproducible way to allow for post hoc seascape genomics analysis, in instances when metadata are reported. Overall, our goal is to demonstrate – via literature review – the utility and importance of seascape genomics to understanding the long term health of forage fish species in the North Pacific.

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Distinct genetic clustering in the weakly differentiated polar cod, Boreogadus saida Lepechin, 1774 from East Siberian Sea to Svalbard

Cited by 11 publications

References 104 publications

Global, regional, and cryptic population structure in a high gene-flow transatlantic fish

Global, regional, and cryptic population structure in a high gene-flow transatlantic fish

Global, regional, and cryptic population structure in a high gene-flow transatlantic fish

The untapped potential of seascape genomics in the North Pacific

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