Data from: Range-wide genomic data synthesis reveals transatlantic vicariance and secondary contact in Atlantic cod

• Main Authors: Fairweather, Robert, Bradbury, Ian R., Heylar, Sarah J., De Bruyn, Mark, Therkildsen, Nina O., Bentzen, Paul, Hemmer-Hansen, Jakob, Carvalho, Gary R.
• Format: Dataset
• Language: unknown
• Published: Data Archiving and Networked Services (DANS) 2019
• Subjects: Life sciences; medicine and health care; synthesis; Marine; phylogeography; Atlantic cod; Fish; Last glacial max. to present; Gadus morhua; geo; envir; Greenland; atlantic cod
• Online Access: https://doi.org/10.5061/dryad.66jp1m9

Recent advances in genetic and genomic analysis have greatly improved our understanding of spatial population structure in marine species. However, studies addressing phylogeographic patterns at oceanic spatial scales remain rare. In Atlantic cod (Gadus morhua), existing range‐wide examinations suggest significant transatlantic divergence, although the fine‐scale contemporary distribution of populations and potential for secondary contact are largely unresolved. Here, we explore transatlantic phylogeography in Atlantic cod using a data‐synthesis approach, integrating multiple genome‐wide single‐nucleotide polymorphism (SNP) datasets representative of different regions to create a single range‐wide dataset containing 1,494 individuals from 54 locations and genotyped at 796 common loci. Our analysis highlights significant transatlantic divergence and supports the hypothesis of westward post‐glacial colonization of Greenland from the East Atlantic. Accordingly, our analysis suggests the presence of transatlantic secondary contact off eastern North America and supports existing perspectives on the phylogeographic history of Atlantic cod with an unprecedented combination of genetic and geographic resolution. Moreover, we demonstrate the utility of integrating distinct SNP databases of high comparability. Cod synthesis SNP listA list of all SNPs along with genbank accession numbers linkage groups, and positional information. Note that positional information refers to position on the linkage group and that linkage and positional information is not available for all SNPs.