Data from: Evaluation of a single nucleotide polymorphism baseline for genetic stock identification of Chinook Salmon (Oncorhynchus tshawytscha) in the California Current Large Marine Ecosystem

Clemento AJ, Crandall ED, Garza JC, Anderson EC

Date Published: July 11, 2014

DOI: http://dx.doi.org/10.5061/dryad.574sv

 

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Title Chinook salmon SNP baseline 2014
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Description Included here are baseline genotypes at 95 SNPs (species diagnostic marker has been excluded) for 7984 Chinook salmon from 68 distinct populations, ranging from California to Alaska. Genotypes are also included for a single sample (n=47) of California coho salmon. Data were collected on a Fluidigm EP1 platform using 96.96 Dynamic Arrays. The archive contains three files: 1) 2010_Baseline_SNPset.txt is the genotype data in gsi_sim format (very similar to GENEPOP) with a header indicating the number of samples and loci, a list of assay names, population blocks denoted with "POP", and tab-delimited genotypes with one allele per column; 2) ReportingUnits_SNPset_2010.txt indicates which populations are included in each reporting unit; 3) SNP_names.txt is simply a list of assay names. In order to these data with the software gsi_sim, all three files should be present in the Baseline directory.
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When using this data, please cite the original publication:

Clemento AJ, Crandall ED, Garza JC, Anderson EC (2014) Evaluation of a single nucleotide polymorphism baseline for genetic stock identification of Chinook Salmon (Oncorhynchus tshawytscha) in the California Current Large Marine Ecosystem. Fishery Bulletin 112(2-3): 112-130. http://dx.doi.org/10.7755/FB.112.2-3.2

Additionally, please cite the Dryad data package:

Clemento AJ, Crandall ED, Garza JC, Anderson EC (2014) Data from: Evaluation of a single nucleotide polymorphism baseline for genetic stock identification of Chinook Salmon (Oncorhynchus tshawytscha) in the California Current Large Marine Ecosystem. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.574sv
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