Isolation of salmonid microsatellite loci and their application to the population genetics of Canadian east coast stocks of Atlantic salmon

doi:10.1016/0044-8486(95)01111-0

Aquaculture

Volume 137, Issues 1–4, 1 December 1995, Pages 19-30

https://doi.org/10.1016/0044-8486(95)01111-0 Get rights and content

Abstract

Genetic variation at four microsatellite loci, two isolated from Atlantic salmon and two from rainbow trout, was assayed in five populations of Alantic salmon from Nova Scotia, Canada and in samples from Norway and Ireland. Up to 38 allelles per locus and heterozygosities of 0.9 were observed at some loci. Genetic distances, calculated over the four loci for all population samples show a clear grouping of populations according to geographic location. These loci show potential as genetic markers in Atlantic salmon due to the range of polymorphisms observed among individual loci and to the ease and speed of sample assay. Highly variable loci will be of use in the ‘genetic tagging’ of cultured fish and in the assessment of levels of gene introgression from cultured to wild stocks. The clear differences in both allele frequencies and alleles observed between continents will be of value in the assessment of the relative sizes of the contributions of Canadian and North European salmon to the mixed fishery off Greenland.

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Genomic DNA for microsatellite analysis was extracted from adipose fin tissue using the HotSHOT protocol (Truett et al., 2000). A panel of 19 microsatellite loci, in five PCR multiplexes, was used to characterise each fish (Table A.1); this comprised two expressed sequence tag-related loci (ESTs) CAO48828, CAO6177 (Vasemagi et al., 2005), an MHC-linked microsatellite (Sasa-TAP2A; Grimholt et al., 2002) and 16 neutral microsatellite markers (Ikediashi et al., 2012): Ssosl417, Ssosl85 (Slettan et al., 1995), Ssa202, Ssa197, Ssa171 (O'Reilly et al., 1996), SSspG7, SSsp3016, SSsp2216, SSsp2210, SSsp1605, SSsp2201 (Paterson et al., 2004), Ssa14, Ssa289 (McConnell et al., 1995), SsaF43 (Sanchez et al., 1996), SsaD144, SsaD157 (King et al., 2005). Polymerase chain reaction (PCR) amplification was performed in a 10 μl reaction mixture consisting of 1 μl DNA (approximately 10–30 ng), 1 μl primer mix, 3 μl water and 5 μl 2 × Mastermix from a Qiagen HotStarTaq mastermix kit.
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¹: Present adress: School of Fisheries, University of Washington, Seattle WA. 98195 USA.

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Isolation of salmonid microsatellite loci and their application to the population genetics of Canadian east coast stocks of Atlantic salmon

Abstract

Aquaculture

Genomics

Isozymes and the preservation of genetic variation in salmonid fishes

Cloning of hypervariable minisatellite and simple sequence microsatellite repeats for DNA fingerprinting of important aquacultural species of salmonids and tilapia

A novel synthetic probe for DNA fingerprinting salmonid fishes

J. Fish. Biol.

Discrimination between Atlantic Salmon (Salmo salar) of North American and European origin using restriction analyses of mitochondrial DNA

Can. J. Fish. Aquat. Sci.

Mitochondrial DNA variation reveals genetically distinct sympatric populations of anadromous and nonanadromous Atlantic salmon, (Salmo salar)

Can. J. Fish. Aquat. Sci.

High resolution of human evolutionary trees with polymorphic microsatellites

Nature

The genomic organization of microsatellites differs between mammals and cold water teleost fishes

Can. J. Fish. Aquat. Sci.

Molecular genetics and the stock concept in fisheries

Rev. Fish. Biol. Fish.

Phylogenetic analysis: models and estimation procedures

Evolution

A review of genetic variation in Atlantic salmon, Salmo salar L., and its importance for stock identification, enhancement programmes and aquaculture

J. Fish. Biol.

(CT)n and (GT)n microsatellites: a new class of genetic markers for Salmo trutta L. (brown trout)

Heredity

PHYLIP (PHYLogeny Inference Package)

The role of molecular genetic markers in the management of cultured fishes

Rev. Fish. Biol. Fish.

Breeding plans for rainbow trout

Aquaculture

DNA-level polymorphism as a tool in fisheries science

Can. J. Fish. Aquat. Sci.

Individual specific “fingerprints” of human DNA

Nature

Genetic protein variation in natural populations of Atlantic Salmon (Salmo salar) in Scotland: temporal and spatial variation

Can. J. Fish. Aquat. Sci.

(CT)_n and (GT)_n microsatellites: a new class of genetic markers for Salmo trutta L. (brown trout)