Genetic evidence for ecological divergence in kokanee salmon

@article{Lemay2015GeneticEF,
  title={Genetic evidence for ecological divergence in kokanee salmon},
  author={Matthew A. Lemay and Michael A. Russello},
  journal={Molecular Ecology},
  year={2015},
  volume={24}
}
The evolution of locally adapted phenotypes among populations that experience divergent selective pressures is a central mechanism for generating and maintaining biodiversity. Recently, the advent of high‐throughput DNA sequencing technology has provided tools for investigating the genetic basis of this process in natural populations of nonmodel organisms. Kokanee, the freshwater form of sockeye salmon (Oncorhynchus nerka), occurs as two reproductive ecotypes, which differ in spawning habitat… 
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References

SHOWING 1-10 OF 99 REFERENCES
Lack of parallel genetic patterns underlying the repeated ecological divergence of beach and stream‐spawning kokanee salmon
TLDR
Gene annotations for detected outliers suggest pathogen resistance and energy metabolism as potential mechanisms contributing to the divergence of beach‐ and stream‐spawning kokanee, but further study is required.
Postglacial genetic differentiation of reproductive ecotypes of kokanee Oncorhynchus nerka in Okanagan Lake, British Columbia
TLDR
There is restricted female‐mediated gene flow between stream‐ and beach‐spawning kokanee in Okanagan Lake, the forms have diverged within the lake basin since the retreat of the Wisconsinian glaciers, and distinct reproductive niches may promote divergence in north temperate freshwater fish faunas.
Population genomic signatures of divergent adaptation, gene flow and hybrid speciation in the rapid radiation of Lake Victoria cichlid fishes
TLDR
A genome‐wide sampling of SNPs identified within restriction site–associated DNA (RAD) tags is used to investigate the genomic consistency of patterns of shared ancestry and adaptive divergence among five sympatric cichlid species of two genera, Pundamilia and Mbipia, which form part of the massive adaptive radiation of cichLids in the East African Lake Victoria.
The genetic mosaic suggests a new role for hitchhiking in ecological speciation
TLDR
It is shown that FST outliers between a pair of incipient species are significantly clustered around QTL for traits that cause ecologically based reproductive isolation, and extensive ‘divergence hitchhiking’ occurs.
Ecological Speciation in Postglacial Fishes
TLDR
It is argued that knowledge of ecological environments is essential to understanding the origin of species in adaptive radiation, and perhaps more generally to complement (and perhaps transform) traditional genetic approaches to speciation.
Population Genomics of Parallel Adaptation in Threespine Stickleback using Sequenced RAD Tags
TLDR
Overall estimates of genetic diversity and differentiation among populations confirm the biogeographic hypothesis that large panmictic oceanic populations have repeatedly given rise to phenotypically divergent freshwater populations and identify several novel regions showing parallel differentiation across independent populations.
Detection of outlier loci and their utility for fisheries management
TLDR
Overall, outlier loci constitute promising alternatives for informing fisheries management involving recently diverged stocks, with potential applications for designating management units across a broad range of taxa.
Fine-scale differentiation between sockeye salmon ecotypes and the effect of phenotype on straying
TLDR
The results indicated that selection against strays may be moderated by the strays’ phenotypic similarity to individuals in the recipient populations, but comparison of assignment results with long-term estimates of gene flow from FST still suggested that strays had low reproductive success.
Recurrent evolution of life history ecotypes in sockeye salmon: implications for conservation and future evolution
TLDR
The ‘recurrent evolution’ (RE) hypothesis claims that the sea/river ecotype is ancestral, a ‘straying’ form with poorly differentiated (meta)population structure, and that highly structured populations of lake‐type sockeye and kokanee have evolved repeatedly in parallel adaptive radiations between recurrent glaciations of the Pleistocene Epoch.
Differential introgression from a sister species explains high FST outlier loci within a mussel species
TLDR
The history and genetic basis underlying strong differentiation at FST outlier loci in a marine mussel tried to be identified, and the Mediterranean population was the most introgressed at these two loci.
...
1
2
3
4
5
...