Genomic signatures of parasite-driven natural selection in north European Atlantic salmon (Salmo salar)

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Zueva , K J , Lumme , J , Veselov , A E , Kent , M P & Primmer , C R 2018 , ' Genomic signatures of parasite-driven natural selection in north European Atlantic salmon (Salmo salar) ' , Marine Genomics , vol. 39 , pp. 26-38 . https://doi.org/10.1016/j.margen.2018.01.001

Title: Genomic signatures of parasite-driven natural selection in north European Atlantic salmon (Salmo salar)
Author: Zueva, Ksenia J.; Lumme, Jaakko; Veselov, Alexey E.; Kent, Matthew P.; Primmer, Craig R.
Contributor: University of Helsinki, Helsinki Institute of Sustainability Science (HELSUS)
Date: 2018-06
Language: eng
Number of pages: 13
Belongs to series: Marine Genomics
ISSN: 1874-7787
URI: http://hdl.handle.net/10138/315575
Abstract: Abstract Understanding the genomic basis of host-parasite adaptation is important for predicting the long-term viability of species and developing successful management practices. However, in wild populations, identifying specific signatures of parasite-driven selection often presents a challenge, as it is difficult to unravel the molecular signatures of selection driven by different, but correlated, environmental factors. Furthermore, separating parasite-mediated selection from similar signatures due to genetic drift and population history can also be difficult. Populations of Atlantic salmon (Salmo salar L.) from northern Europe have pronounced differences in their reactions to the parasitic flatworm Gyrodactylus salaris Malmberg 1957 and are therefore a good model to search for specific genomic regions underlying inter-population differences in pathogen response. We used a dense Atlantic salmon SNP array, along with extensive sampling of 43 salmon populations representing the two G. salaris response extremes (extreme susceptibility vs resistant), to screen the salmon genome for signatures of directional selection while attempting to separate the parasite effect from other factors. After combining the results from two independent genome scan analyses, 57 candidate genes potentially under positive selection were identified, out of which 50 were functionally annotated. This candidate gene set was shown to be functionally enriched for lymph node development, focal adhesion genes and anti-viral response, which suggests that the regulation of both innate and acquired immunity might be an important mechanism for salmon response to G. salaris. Overall, our results offer insights into the apparently complex genetic basis of pathogen susceptibility in salmon and highlight methodological challenges for separating the effects of various environmental factors.
Subject: 1184 Genetics, developmental biology, physiology
Atlantic salmon
Genomic adaptation
Genome scan
Parasite-driven selection
Gyrodactylus salaris
LOCAL ADAPTATION
RAINBOW-TROUT
ONCORHYNCHUS-MYKISS
PROTEIN-COUPLED RECEPTORS
GYRODACTYLUS-SALARIS
EXPRESSION PROFILES
ROR-ALPHA
BALTIC SEA
IMMUNE-RELEVANT GENES
PANCREATIC NECROSIS VIRUS
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