An international multi‐laboratory project was conducted to develop a standardized DNA database for Chinook salmon (Oncorhynchus tshawytscha). This project was in response to the needs of the Chinook Technical Committee of the Pacific Salmon Commission to identify stock composition of Chinook salmon caught in fisheries during their oceanic migrations. Nine genetics laboratories identified 13 microsatellite loci that could be reproducibly assayed in each of the laboratories. To test that the loci were reproducible among laboratories, blind tests were conducted to verify scoring consistency for the nearly 500 total alleles. Once standardized, a dataset of over 16,000 Chinook salmon representing 110 putative populations was constructed ranging throughout the area of interest of the Pacific Salmon Commission from Southeast Alaska to the Sacramento River in California. The dataset differentiates the major known genetic lineages of Chinook salmon and provides a tool for genetic stock identification of samples collected from mixed fisheries. A diverse group of scientists representing the disciplines of fishery management, genetics, fishery administration, population dynamics, and sampling theory are now developing recommendations for the integration of these genetic data into ocean salmon management.

Single nucleotide polymorphisms (SNPs) are appealing genetic markers due to several beneficial attributes, but uncertainty remains about how many of these bi-allelic markers are necessary to have sufficient power to differentiate populations, a task now generally accomplished with highly polymorphic microsatellite markers. In this study, we tested the utility of 37 SNPs and 13 microsatellites for differentiating 29 broadly distributed populations of Chinook salmon (n = 2783). Information content of all loci was determined by In and , and the top 12 markers ranked by In were microsatellites, but the 6 highest, and 7 of the top 10 ranked markers, were SNPs. The mean ratio of random SNPs to random microsatellites ranged from 3.9 to 4.1, but this ratio was consistently reduced when only the most informative loci were included. Individual assignment test accuracy was higher for microsatellites (73.1%) than SNPs (66.6%), and pooling all 50 markers provided the highest accuracy (83.2%). When marker types were combined, as few as 15 of the top ranked loci provided higher assignment accuracy than either microsatellites or SNPs alone. Neighbour-joining dendrograms revealed similar clustering patterns and pairwise tests of population differentiation had nearly identical results with each suite of markers. Statistical tests and simulations indicated that closely related populations were better differentiated by microsatellites than SNPs. Our results indicate that both types of markers are likely to be useful in population genetics studies and that, in some cases, a combination of SNPs and microsatellites may be the most effective suite of loci. Fig. 2 Chord distance (D CSE ) neighbour-joining dendrograms and self-assignment matrices of populations of Chinook salmon from North America as determined with (a) 13 microsatellites, (b) 37 SNPs, and (c) all 50 markers combined. The diagonal represents the percentage of self-assigned individuals from a population and shaded blocks above and below the diagonal indicate percentage of mis-assignments to populations corresponding with the dendrogram. Grey grid lines correspond to regional clusters in the neighbour-joining dendrogram. Shading scale at the right of each figure depicts percentage assignment in 10% increments. 3472 S . R . N A R U M E T A L .

Farley, E. V., Starovoytov, A., Naydenko, S., Heintz, R., Trudel, M., Guthrie, C., Eisner, L., Guyon, J. R. 2011. Implications of a warming eastern Bering Sea for Bristol Bay sockeye salmon. – ICES Journal of Marine Science, 68: 1138–1146. Overwinter survival of Pacific salmon (Oncorhynchus sp.) is believed to be a function of size and energetic status they gain during their first summer at sea. We test this notion for Bristol Bay sockeye salmon (O. nerka), utilizing data from large-scale fisheries and oceanographic surveys conducted during mid-August to September 2002–2008 and from February to March 2009. The new data presented in this paper demonstrate size-selective mortality for Bristol Bay sockeye salmon between autumn and their first winter at sea. Differences in the seasonal energetic signatures for lipid and protein suggest that these fish are not starving, but instead the larger fish caught during winter apparently are utilizing energy stores to minimize predation. Energetic status of juvenile sockeye salmon was also strongly related to marine survival indices and years with lower energetic status apparently are a function of density-dependent processes associated with high abundance of juvenile sockeye salmon. Based on new information regarding eastern Bering Sea ecosystem productivity under a climate-warming scenario, we hypothesize that sustained increases in spring and summer sea temperatures may negatively affect energetic status of juvenile sockeye salmon, potentially resulting in increased overwinter mortality.