10.5061/DRYAD.8849
Seeb, Lisa W
Alaska Department of Fish and Game
Templin, William D
Alaska Department of Fish and Game
Sato, Shunpei
Abe, Syuiti
Warheit, Kenneth
Washington Department of Fish and Wildlife
Park, Jung Youn
Seeb, James E
University of Washington
Data from: Single nucleotide polymorphisms across a species' range:
implications for conservation studies of Pacific salmon
Dryad
dataset
2011
Oncorhynchus keta
2011-03-16T20:03:31Z
2011-03-16T20:03:31Z
en
https://doi.org/10.1111/j.1755-0998.2010.02966.x
4354595 bytes
1
CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
Studies of the oceanic and near-shore distributions of Pacific salmon,
whose migrations typically span thousands of kilometers, have become
increasingly valuable in the presence of climate change, increasing
hatchery production, and potentially high rates of bycatch in offshore
fisheries. Genetics data offer considerable insights into both the
migratory routes as well as the evolutionary histories of the species.
However, these types of studies require extensive datasets from spawning
populations originating from across the species? range. Single nucleotide
polymorphisms (SNPs) have been particularly amenable for multi-national
applications because they are easily shared, require little
inter-laboratory standardization, and can be assayed through increasingly
efficient technologies. Here we discuss the development of a dataset for
114 populations of chum salmon through a collaboration among North
American and Asian researchers, termed PacSNP. PacSNP is focused on
developing the database and applying it to problems of international
interest. A dataset spanning the entire range of species provides a unique
opportunity to examine patterns of variability, and we review issues
associated with SNP development. We found evidence of ascertainment bias
within the dataset, variable linkage relationships between SNPs associated
with ancestral groupings, and outlier loci with alleles associated with
latitude.
PacSNP chum data for MERThe file is formatted for GenAlEx software, but
can easily be converted to Genepop or similar formats. Genotypes are in
two-column format with missing data designated with a “0”. Population code
and locus code worksheets follow the rawdata. The population order differs
between the rawdata which is in numeric order and Table 1 of the
manuscript which is ordered geographically. This is particularly
noticeable in the order of the Western Alaska populations including the
Yukon River. The rawdata includes laboratory names for the SNPs; a key to
published names is in the locus code worksheet. The mtDNA SNPs are listed
independently and have not been combined into composite haplotypes.
Asia
Pacific Rim
Alaska
North America