Restricted matrilineal gene flow and regional differentiation among Atlantic salmon (Salmo salar L.) populations within the Bay of Fundy, eastern Canada

Verspoor, Eric; O'Sullivan, Martha; Arnold, Alex; Knox, D.; Amiro, Peter G.

doi:10.1038/sj.hdy.6800166

Cited by 50 publications

(50 citation statements)

References 33 publications

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“…Similar genetic diversity (14%) was observed among Atlantic salmon (Salmo salar) populations from the Bay of Fundy in southeastern Canada (Verspoor 2002). A higher genetic diversity was reported among Brachymystax lenok tsinlingensis populations from the streams of the Qinling Mountains (26.02%) and from the water system of eastern China (24.17-41.26%) (Xia et al 2006;Liu et al 2015).…”

Section: Discussionsupporting

confidence: 48%

Application of mtDNA markers for European huchen (Hucho hucho Linnaeus, 1758) management in Poland

Kucinski¹,

Fopp‐Bayat²,

Zivna³

et al. 2015

CZECH J ANIM SCI

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Four broodstocks of European huchen (Hucho hucho) from Poland, Germany, Slovakia, and Ukraine were investigated using five selected fragments of mtDNA. The mitochondrial DNA sequence analysis was successfully applied to the Polish and German broodstocks of European huchen for the first time. A very low haplotype (h = 0.097) and nucleotide (π = 0.00013) diversity across 3573 bases of mtDNA fragments (partial regions of NADH-1, ATPase 6, Cytochrome b, evidenced by three closely related mtDNA haplotypes were found. The analysis of pairwise genetic differentiation (Fst) displayed a statistically significant differentiation between German (clade A) and the rest of examined broodstocks (clade B), clustering them into two separate groups. Moreover, the applied mtDNA markers did not reveal any differences among fish from the clade B, suggesting that other markers should be used to display a deeper genetic background of the studied broodstocks. The two clusters of European huchen distinguished under the current study should be considered as distinct management units by managers, who may be tempted to transport brood fish or yearlings across the range of European huchen distribution. It means that stocking material and spawners of European huchen from the upper parts of the Danube River (Clade A) should not be mixed with those from the lower parts (Clade B). Moreover, for any supplementation of broodstocks in order to increase their genetic variability only the fishes within the described management units should be used.

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Section: Discussionsupporting

confidence: 48%

Application of mtDNA markers for European huchen (Hucho hucho Linnaeus, 1758) management in Poland

Kucinski¹,

Fopp‐Bayat²,

Zivna³

et al. 2015

CZECH J ANIM SCI

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“…Thirtynine of the SNPs were polymorphic within one or several regions, as indicated by nucleotides given in underscore and bold in Table 2. To the best of our knowledge, 31 of these SNPs have not previously been reported, while the remaining 22 SNP have been reported by Nilsson et al (2001), Consuegra et al (2002), Verspoor et al (2002), and/or King et al (2007). In addition to the SNPs presented in Table 2, Nilsson et al (2001) reported one additional SNP, Verspoor et al (2002) reported eight additional SNPs, and King et al (2007) reported 17 additional SNPs.…”

mentioning

confidence: 81%

An extended panel of single nucleotide polymorphisms in Atlantic salmon (Salmo salar L.) mitochondrial DNA

Karlsson

Moen²,

Hindar

2009

Conserv Genet

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A total of 6,324 base pairs, distributed on eight different regions of the mitochondrial DNA (mtDNA) were re-sequenced for 32 specimens of Norwegian farmed and wild Atlantic salmon. A total of 16 new and three previously reported single nucleotide polymorphisms (SNPs) were detected. These SNPs were validated using 240 farm and 119 wild Norwegian salmon. Alignments of sequences obtained in this study and previously published sequences revealed another 15 previously unreported SNPs. The panel of mitochondrial SNPs detected in the present study will, in combination with previously identified SNPs, prove useful in designing efficient assays for analyzes of mtDNA variation.

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“…Atlantic salmon populations in the Bay of Fundy in eastern Canada can be divided into two regional groups: those in the outer Bay of Fundy (oBoF) [e.g., the Saint John River (SJR) and the Tobique River] and those in the inner Bay of Fundy (iBoF) (e.g., Stewiacke River), using evidence from microsatellite analysis (King, Kalinowski, Schill, Spidle, & Lubinski, 2001), allozyme studies (Verspoor, O'Sullivan, Arnold, Knox, & Amiro, 2002), gene expression patterns (Tymchuk, O'Reilly, Bittman, Macdonald, & Schulte, 2010), and SNPs (Freamo et al., 2011). We chose TOB_WILD as a putative founder population of AQUA; however, we acknowledge that salmon from any tributary of the SJR above the Mactaquac dam (http://atlanticsalmonfederation.org/rivers/newbrunswick.html) could potentially have contributed to AQUA (Farmer, 1991).…”

Section: Methodsmentioning

confidence: 99%

A genome scan for selection signatures comparing farmed Atlantic salmon with two wild populations: Testing colocalization among outlier markers, candidate genes, and quantitative trait loci for production traits

Liu

Ang

Elliott

et al. 2016

Evolutionary Applications

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Comparative genome scans can be used to identify chromosome regions, but not traits, that are putatively under selection. Identification of targeted traits may be more likely in recently domesticated populations under strong artificial selection for increased production. We used a North American Atlantic salmon 6K SNP dataset to locate genome regions of an aquaculture strain (Saint John River) that were highly diverged from that of its putative wild founder population (Tobique River). First, admixed individuals with partial European ancestry were detected using STRUCTURE and removed from the dataset. Outlier loci were then identified as those showing extreme differentiation between the aquaculture population and the founder population. All Arlequin methods identified an overlapping subset of 17 outlier loci, three of which were also identified by BayeScan. Many outlier loci were near candidate genes and some were near published quantitative trait loci (QTLs) for growth, appetite, maturity, or disease resistance. Parallel comparisons using a wild, nonfounder population (Stewiacke River) yielded only one overlapping outlier locus as well as a known maturity QTL. We conclude that genome scans comparing a recently domesticated strain with its wild founder population can facilitate identification of candidate genes for traits known to have been under strong artificial selection.

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Restricted matrilineal gene flow and regional differentiation among Atlantic salmon (Salmo salar L.) populations within the Bay of Fundy, eastern Canada

Cited by 50 publications

References 33 publications

Application of mtDNA markers for European huchen (Hucho hucho Linnaeus, 1758) management in Poland

Application of mtDNA markers for European huchen (Hucho hucho Linnaeus, 1758) management in Poland

An extended panel of single nucleotide polymorphisms in Atlantic salmon (Salmo salar L.) mitochondrial DNA

A genome scan for selection signatures comparing farmed Atlantic salmon with two wild populations: Testing colocalization among outlier markers, candidate genes, and quantitative trait loci for production traits

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