Development of twenty sequence-tagged microsatellites for the Atlantic cod (Gadus morhua L.)

Madjid Delghandi; Mette Serine Wesmajervi; Saskia Mennen; Frank Nilsen

doi:10.1007/s10592-008-9507-3

Development of twenty sequence-tagged microsatellites for the Atlantic cod (Gadus morhua L.)

Madjid Delghandi, Mette Serine Wesmajervi, Saskia Mennen, Frank Nilsen

Excellence in Marine Biotechnology

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Abstract

Fifty-four primer pairs were designed for expressed sequence tag (EST) sequences containing perfect di- and tri-nucleotide motifs and characterised in 96 unrelated fish. Twenty markers were successfully amplified with number of alleles from 2 to 10 per locus and observed and expected heterozygosity ranging from 0.01 to 0.56 and 0.03 to 0.70, respectively. Loci Gmo-C213, Gmo-C246 and Gmo-C247 deviated from Hardy-Weinberg equilibrium. Genetic linkage disequilibrium analysis between all pairs of the loci showed significant departure from the null hypothesis between loci Gmo-C213 and Gmo-C222, Gmo-C233 and Gmo-C229, C223 and Gmo-C236 and C229 and Gmo-C236. The gene identity was determined at 10 of the loci, confirming the associated microsatellites as Type I markers. These microsatellite markers provide useful tools for studies of population genetics, reproductive ecology and constructing linkage maps of Atlantic cod.

Original language	English
Pages (from-to)	1395-1398
Number of pages	4
Journal	Conservation Genetics
Volume	9
Issue number	5
DOIs	https://doi.org/10.1007/s10592-008-9507-3
Publication status	Published - Oct 2008

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Keywords

Atlantic cod
cDNA
Expressed sequence tags (ESTs)
Gadus morhua
Microsatellites
Type I markers

ASJC Scopus subject areas

Agricultural and Biological Sciences(all)
Genetics
Genetics(clinical)
Nature and Landscape Conservation

Cite this

Delghandi, M., Wesmajervi, M. S., Mennen, S., & Nilsen, F. (2008). Development of twenty sequence-tagged microsatellites for the Atlantic cod (Gadus morhua L.). Conservation Genetics, 9(5), 1395-1398. https://doi.org/10.1007/s10592-008-9507-3

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abstract = "Fifty-four primer pairs were designed for expressed sequence tag (EST) sequences containing perfect di- and tri-nucleotide motifs and characterised in 96 unrelated fish. Twenty markers were successfully amplified with number of alleles from 2 to 10 per locus and observed and expected heterozygosity ranging from 0.01 to 0.56 and 0.03 to 0.70, respectively. Loci Gmo-C213, Gmo-C246 and Gmo-C247 deviated from Hardy-Weinberg equilibrium. Genetic linkage disequilibrium analysis between all pairs of the loci showed significant departure from the null hypothesis between loci Gmo-C213 and Gmo-C222, Gmo-C233 and Gmo-C229, C223 and Gmo-C236 and C229 and Gmo-C236. The gene identity was determined at 10 of the loci, confirming the associated microsatellites as Type I markers. These microsatellite markers provide useful tools for studies of population genetics, reproductive ecology and constructing linkage maps of Atlantic cod.",

keywords = "Atlantic cod, cDNA, Expressed sequence tags (ESTs), Gadus morhua, Microsatellites, Type I markers",

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AU - Delghandi, Madjid

AU - Wesmajervi, Mette Serine

AU - Mennen, Saskia

AU - Nilsen, Frank

PY - 2008/10

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N2 - Fifty-four primer pairs were designed for expressed sequence tag (EST) sequences containing perfect di- and tri-nucleotide motifs and characterised in 96 unrelated fish. Twenty markers were successfully amplified with number of alleles from 2 to 10 per locus and observed and expected heterozygosity ranging from 0.01 to 0.56 and 0.03 to 0.70, respectively. Loci Gmo-C213, Gmo-C246 and Gmo-C247 deviated from Hardy-Weinberg equilibrium. Genetic linkage disequilibrium analysis between all pairs of the loci showed significant departure from the null hypothesis between loci Gmo-C213 and Gmo-C222, Gmo-C233 and Gmo-C229, C223 and Gmo-C236 and C229 and Gmo-C236. The gene identity was determined at 10 of the loci, confirming the associated microsatellites as Type I markers. These microsatellite markers provide useful tools for studies of population genetics, reproductive ecology and constructing linkage maps of Atlantic cod.

AB - Fifty-four primer pairs were designed for expressed sequence tag (EST) sequences containing perfect di- and tri-nucleotide motifs and characterised in 96 unrelated fish. Twenty markers were successfully amplified with number of alleles from 2 to 10 per locus and observed and expected heterozygosity ranging from 0.01 to 0.56 and 0.03 to 0.70, respectively. Loci Gmo-C213, Gmo-C246 and Gmo-C247 deviated from Hardy-Weinberg equilibrium. Genetic linkage disequilibrium analysis between all pairs of the loci showed significant departure from the null hypothesis between loci Gmo-C213 and Gmo-C222, Gmo-C233 and Gmo-C229, C223 and Gmo-C236 and C229 and Gmo-C236. The gene identity was determined at 10 of the loci, confirming the associated microsatellites as Type I markers. These microsatellite markers provide useful tools for studies of population genetics, reproductive ecology and constructing linkage maps of Atlantic cod.

KW - Atlantic cod

KW - cDNA

KW - Expressed sequence tags (ESTs)

KW - Gadus morhua

KW - Microsatellites

KW - Type I markers

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10.1007/s10592-008-9507-3