Data from: Evolution of the immune system influences speciation rates in teleost fishes

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 comp...

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Bibliographic Details
Main Authors: Malmstrøm, Martin, Matschiner, Michael, Tørresen, Ole K., Star, Bastiaan, Snipen, Lars G., Hansen, Thomas F., Baalsrud, Helle T., Nederbragt, Alexander J., Hanel, Reinhold, Salzburger, Walter, Stenseth, Nils C., Jakobsen, Kjetill S., Jentoft, Sissel
Format: Dataset
Language:unknown
Published: 2017
Subjects:
Jurassic
Teleostei
atlantic cod
Online Access:https://zenodo.org/record/5036910
https://doi.org/10.5061/dryad.326r8
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Summary: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. Assembled scaffolds for Arctogadus glacialisfish_1.scf.fasta.gzAssembled unitigs for Arctogadus glacialisfish_1.utg.fasta.gzAssembled scaffolds for Boreogadus saidafish_2.scf.fasta.gzAssembled unitigs for Boreogadus saidafish_2.utg.fasta.gzAssembled scaffolds for Trisopterus minutusfish_3.scf.fasta.gzAssembled unitigs for Trisopterus minutusfish_3.utg.fasta.gzAssembled scaffolds for Pollachius virensfish_4.scf.fasta.gzAssembled unitigs for Pollachius virensfish_4.utg.fasta.gzAssembled scaffolds for Melanogrammus aeglefinusfish_5.scf.fasta.gzAssembled unitigs for Melanogrammus aeglefinusfish_5.utg.fasta.gzAssembled scaffolds for Merlangius merlangusfish_6.scf.fasta.gzAssembled unitigs for Merlangius merlangusfish_6.utg.fasta.gzAssembled scaffolds for Theragra chalcogrammafish_7.scf.fasta.gzAssembled unitigs for Theragra chalcogrammafish_7.utg.fasta.gzAssembled scaffolds for Gadiculus argenteusfish_8.scf.fasta.gzAssembled unitigs for Gadiculus argenteusfish_8.utg.fasta.gzAssembled scaffolds for Phycis ...

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