Genotyping of two populations of Southern Baltic Sea trout Salmo trutta m. trutta using an Atlantic salmon derived SNP-array

Agata Drywa, Anita Poćwierz-kotus, Anna Wąs, Stefan Dobosz, Matthew P. Kent, Sigbjørn Lien, Rafał Bernaś, Roman Wenne

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Abstract

The sea trout (Salmo trutta m. trutta) is an anadromous, teleost fish species characterized by homing behaviour. The sea trout has considerable ecological and economic significance. It reproduces naturally in rivers flowing into, and is common in, the Baltic Sea. In Poland spawning aggregations occur in the Vistula River and the rivers of Pomerania. Two populations from the Vistula River (TW) and a Pomeranian river, the Słupia (TP) were mixed in the past by stocking. The main purpose of this study was an assessment of the applicability of the Atlantic salmon custom design Illumina iSelect SNP (Single Nucleotide Polymorphisms) array containing 15,225 markers for identification of genetic diversity between sea trout populations. A diagnostic panel of 39 SNPs with a mean FST = 0.1298 was selected from a pool of 15,225. At each locus, minor allele frequency was higher than 0.01 and mean expected heterozygosity for TW and TP populations were 0.343 and 0.271 respectively. Individuals tested were clustered in one of two groups which corresponded to their origins where the TW population was genetically more homogenous (membership coefficients ranked from 88.8% to 98.6%) while the TP population was more diverse (membership coefficients ranked from 53.8% to 98.5%). The results demonstrated the applicability of the Salmon 15K SNP-chip for determining the differences between Southern Baltic populations of the sea trout, a closely related salmonid species.
Original languageEnglish
Pages (from-to)25-32
Number of pages8
JournalMarine Genomics
Volume9
Early online date5 Nov 2012
DOIs
Publication statusPublished - 1 Mar 2013

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Keywords

  • Salmo trutta
  • SNP
  • Microarray
  • Population genomics

Cite this

Drywa, A., Poćwierz-kotus, A., Wąs, A., Dobosz, S., Kent, M. P., Lien, S., Bernaś, R., & Wenne, R. (2013). Genotyping of two populations of Southern Baltic Sea trout Salmo trutta m. trutta using an Atlantic salmon derived SNP-array. Marine Genomics, 9, 25-32. https://doi.org/10.1016/j.margen.2012.08.001