70K SNP array data for Lumpfish (Cyclopterus lumpus) across the trans-Atlantic

• Main Authors: Langille, Barbara, Kess, Tony, Nugent, Cameron, Messmer, Amber, Duffy, Steven, Knutsen, Tim, Kent, Matthew, Boyce, Danny, Gregory, Robert, Gauthier, Johanne, Fairchild, Elizabeth, Pietrak, Michael, Eddy, Stephen, Garcia de Leaniz, Carlos, Consuegra, Sofia, Whittaker, Ben, Bentzen, Paul, Bradbury, Ian
• Format: Other/Unknown Material
• Language: unknown
• Published: Zenodo 2024
• Subjects: Cyclopterus lumpus; Lumpfish; North Atlantic distribution; SNP array; SNP chip; 70K SNP array; Newfoundland; North Atlantic; Northwest Atlantic
• Online Access: https://doi.org/10.5061/dryad.j3tx95xp3

In marine species with large populations and high dispersal potential, large-scale genetic differences and clinal trends in allele frequency can provide insight into the evolutionary processes that shape diversity. Lumpfish, Cyclopterus lumpus , is found throughout the North Atlantic and has traditionally been harvested for roe and more recently used as a cleaner fish in salmon aquaculture. We used a 70K SNP array to evaluate trans-Atlantic differentiation, genetic structuring, and clinal variation across the North Atlantic. Basin-scale structuring between the Northeast and Northwest Atlantic was significant, with enrichment for loci associated with developmental/mitochondrial function. We identified a putative structural variant on chromosome 2, likely contributing to differentiation between Northeast and Northwest Atlantic Lumpfish, and consistent with post-glacial trans-Atlantic secondary contact. Redundancy Analysis identified climate associations both in the Northeast ( N = 1269 loci) and Northwest ( N = 1637 loci), with 103 shared loci between them. Clinal patterns in allele frequencies were observed in some loci (15% - Northwest and 5% - Northeast) of which 708 loci were shared and involved with growth, developmental processes, and locomotion. The combined evidence of trans-Atlantic differentiation, environmental associations, and clinal loci, suggests that both regional and large-scale potentially-adaptive population structuring is present across the North Atlantic. Funding provided by: Fisheries and Oceans Canada funding programs* Crossref Funder Registry ID: Award Number: Funding provided by: Aquaculture Collaborative Research and Development Program* Crossref Funder Registry ID: Award Number: Funding provided by: Newfoundland Aquaculture Industry Association Crossref Funder Registry ID: https://ror.org/01mqvzc02 Award Number: Funding provided by: Grieg NL Seafarms Ltd* Crossref Funder Registry ID: Award Number: Funding provided by: Cooke Aquaculture Inc* Crossref Funder Registry ID: Award Number: ...