Data from: Evolution of the immune system influences speciation rates in teleost fishes
Malmstrøm, Martin1; Matschiner, Michael1; Tørresen, Ole K.1; Star, Bastiaan1; Snipen, Lars G.2; Hansen, Thomas F.1; Baalsrud, Helle T.1; Nederbragt, Alexander J.1; Hanel, Reinhold3; Salzburger, Walter1; Stenseth, Nils C.1; Jakobsen, Kjetill S.1; Jentoft, Sissel1
University of Oslo
Norwegian University of Life Sciences
Institute of Fisheries Ecology, Federal Research Institute for Rural Areas, Forestry and Fisheries, Hamburg, Germany
Published Jul 15, 2017
on Dryad.
https://doi.org/10.5061/dryad.326r8
Cite this dataset
Malmstrøm, Martin et al. (2017). Data from: Evolution of the immune system influences speciation rates in teleost fishes [Dataset]. Dryad. https://doi.org/10.5061/dryad.326r8
Abstract
Teleost fishes constitute the most species-rich vertebrate clade and exhibit extensive genetic and phenotypic variation, including diverse immune defense strategies. The genomic basis of a particularly aberrant strategy is exemplified by Atlantic cod, in which a loss of major histocompatibility complex (MHC) II functionality coincides with a marked expansion of MHC I genes. Through low-coverage genome sequencing (9–39×), assembly and comparative analyses for 66 teleost species, we show here that MHC II is missing in the entire Gadiformes lineage and thus was lost once in their common ancestor. In contrast, we find that MHC I gene expansions have occurred multiple times, both inside and outside this clade. Moreover, we identify an association between high MHC I copy number and elevated speciation rates using trait-dependent diversification models. Our results extend current understanding of the plasticity of the adaptive immune system and suggest an important role for immune-related genes in animal diversification.
Usage notes
Assembled scaffolds for Arctogadus glacialis
fish_1.scf.fasta.gz
Assembled unitigs for Arctogadus glacialis
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Assembled scaffolds for Boreogadus saida
fish_2.scf.fasta.gz
Assembled unitigs for Boreogadus saida
fish_2.utg.fasta.gz
Assembled scaffolds for Trisopterus minutus
fish_3.scf.fasta.gz
Assembled unitigs for Trisopterus minutus
fish_3.utg.fasta.gz
Assembled scaffolds for Pollachius virens
fish_4.scf.fasta.gz
Assembled unitigs for Pollachius virens
fish_4.utg.fasta.gz
Assembled scaffolds for Melanogrammus aeglefinus
fish_5.scf.fasta.gz
Assembled unitigs for Melanogrammus aeglefinus
fish_5.utg.fasta.gz
Assembled scaffolds for Merlangius merlangus
fish_6.scf.fasta.gz
Assembled unitigs for Merlangius merlangus
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Assembled scaffolds for Theragra chalcogramma
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Assembled unitigs for Theragra chalcogramma
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Assembled scaffolds for Gadiculus argenteus
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Assembled unitigs for Gadiculus argenteus
fish_8.utg.fasta.gz
Assembled scaffolds for Phycis phycis
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Assembled unitigs for Phycis phycis
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Assembled scaffolds for Molva molva
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Assembled unitigs for Molva molva
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Assembled scaffolds for Lota lota
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Assembled unitigs for Lota lota
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Assembled scaffolds for Brosme brosme
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Assembled unitigs for Brosme brosme
fish_12.utg.fasta.gz
Assembled scaffolds for Merluccius merluccius
fish_13.scf.fasta.gz
Assembled unitigs for Merluccius merluccius
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Assembled scaffolds for Merluccius capensis
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Assembled unitigs for Merluccius capensis
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Assembled scaffolds for Merluccius polli
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Assembled unitigs for Merluccius polli
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Assembled scaffolds for Melanonus zugmayeri
fish_16.scf.fasta.gz
Assembled unitigs for Melanonus zugmayeri
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Assembled scaffolds for Macrourus berglax
fish_17.scf.fasta.gz
Assembled unitigs for Macrourus berglax
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Assembled scaffolds for Malacocephalus occidentalis