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Open Access Research article

Development of a SNP resource and a genetic linkage map for Atlantic cod (Gadus morhua)

Sophie Hubert12, Brent Higgins1, Tudor Borza1 and Sharen Bowman1*

Author Affiliations

1 The Atlantic Genome Centre, Halifax, NS, B3H 3Z1, Canada

2 Department des Sciences, Universite Sainte Anne, Pointe-de-l'Eglise, NS, B0W 1M0, Canada

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BMC Genomics 2010, 11:191  doi:10.1186/1471-2164-11-191

Published: 22 March 2010

Additional files

Additional file 1:

Automated annotation of SNP-containing contigs and amino acid substitutions for non-synonymous SNPs. This includes best hit in the NCBI nr database together with the bit score and e-value, and alternative amino acids for any SNPs resulting in non-synonymous substitutions.

Format: XLS Size: 233KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 2:

Properties of selected SNPs for which a functional assay was developed. This includes SNP accession numbers, observed and expected heterozygosity, minor allele frequency, tests for departure from HWE and Mendelian segregation.

Format: XLS Size: 452KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 3:

Atlantic cod SNPs polymorphic in Atlantic Canada but monomorphic in the eastern Atlantic. List of SNPs that were monomorphic in the eastern Atlantic (Iceland, Ireland and Norway) but polymorphic in Atlantic Canadian populations of cod.

Format: XLS Size: 22KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 4:

Previously published SNPs. Names of previously published SNPs together with any alternative names for these SNPs that were used in this study.

Format: XLS Size: 31KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data