Genomic population structure of striped bass (Morone saxatilis) from the Gulf of St. Lawrence to Cape Fear River
Creators
- 1. University of New Brunswick
- 2. Massachusetts Division of Marine Fisheries*
- 3. Acadia University
- 4. North Carolina State University
- 5. Nova Scotia Department of Agriculture
- 6. University of Montana
Description
Striped Bass, Morone saxatilis (Walbaum, 1792), is an anadromous fish species that supports fisheries throughout North America and is native to the North American Atlantic Coast. Due to long coastal migrations that span multiple jurisdictions, a detailed understanding of population genomics is required to untangle demographic patterns, understand local adaptation, and characterize population movements. This study used 1256 single nucleotide polymorphism (SNP) loci to investigate genetic structure of 477 Striped Bass sampled from 15 locations spanning the North American Atlantic coast from the Gulf of St. Lawrence, Canada to the Cape Fear River, United States (US). We found striking differences in neutral divergence among Canadian sites, which were isolated from each other and US populations, compared with US populations that were much less isolated. Our SNP dataset was able to assign 99% of Striped Bass back to six reporting groups, a 39% improvement over previous genetic markers. Using this method, we found (1) evidence of admixture within Saint John River, indicating that migrants from the US and from Shubenacadie River occasionally spawn in the Saint John River; (2) Striped Bass collected in the Mira River, Cape Breton, Canada were found to be of both Miramichi River and US origin ; (3) juveniles in the newly restored Kennebec River population had small and nonsignificant differences from the Hudson River; and (4) tributaries within the Chesapeake Bay showed a mixture of homogeny and small differences among each other. This study introduces new hypotheses about the dynamic zoogeography of Striped Bass at its northern range and has important implications for the local and international management of this species.
Notes
This STRUCTURE file contains 1291 RAD-seq derived SNPs detected among 477 Striped Bass, Morone saxatilis, individuals collected from 14 locations. SNPs were called by stacks v1.46, and missing data is encoded as '-9'. Parameters are outlined in the methods above and in the associated manuscript.
structure_stripedbass_allLoci_noSibs.str
structure_stripedbass_neutralLoci_noSibs
This STRUCTURE file contains 1256 putatively neutral RAD-seq derived SNPs detected among 477 Striped Bass, Morone saxatilis, individuals collected from 14 locations. SNPs were called by stacks v1.46, and missing data is encoded as '-9'. Parameters are outlined in the methods above and in the associated manuscript.
structure_stripedbass_neutralLoci_noSibs.str
genepop_stripedbass_allLoci_noSibs.gen
This STRUCTURE file contains 1256 putatively neutral RAD-seq derived SNPs detected among 477 Striped Bass, Morone saxatilis, individuals collected from 14 locations. SNPs were called by stacks v1.46, and missing data is encoded as '-9'. Parameters are outlined in the methods above and in the associated manuscript.
batch_1.MiraOnlyNT80.fa
This FASTA file contains the full fragment sequences that contain the 1291 SNPs present in other input files. Use the loci_codes.csv file to convert loci names to genomic position
loci_codes.csv
Loci_codes.csv gives the full genome position of all loci. Loci are aligned to assembly GCA_001663605.1 of the Striped Bass genome.
Distances.xlsx
Spreadsheet containing approximate distances in kilometres between rivers used in isolation-by-distance calculations.
Funding provided by: Canada Research Chairs
Crossref Funder Registry ID: http://dx.doi.org/10.13039/501100001804
Award Number:
Funding provided by: Massachusetts Division of Marine Fisheries*
Crossref Funder Registry ID:
Award Number:
Funding provided by: Natural Sciences and Engineering Research Council of Canada
Crossref Funder Registry ID: http://dx.doi.org/10.13039/501100000038
Award Number:
Funding provided by: New Brunswick Innovation Foundation
Crossref Funder Registry ID: http://dx.doi.org/10.13039/501100000240
Award Number:
Funding provided by: U.S. Fish and Wildlife Service, Sportfish Restoration Program*
Crossref Funder Registry ID:
Award Number: F-57-R-24
Funding provided by: University of New Brunswick
Crossref Funder Registry ID: http://dx.doi.org/10.13039/100009368
Award Number:
Funding provided by: Massachusetts Division of Marine Fisheries
Crossref Funder Registry ID:
Funding provided by: U.S. Fish and Wildlife Service, Sportfish Restoration Program
Crossref Funder Registry ID:
Award Number: F-57-R-24
Files
loci_codes.csv
Files
(158.1 MB)
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