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Genomics of habitat choice and adaptive evolution in a deep-sea fish

Gaither, Michelle R.; Gkafas, Georgios A.; de Jong, Menno; Sarigol, Fatih; Neat, Francis; Regnier, Thomas; Moore, Daniel; Grӧcke, Darren R.; Hall, Neil; Liu, Xuan; Kenny, John; Lucaci, Anita; Hughes, Margaret; Haldenby, Sam; Hoelzel, A. Rus

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Authors

Michelle R. Gaither

Georgios A. Gkafas

Menno de Jong

Fatih Sarigol

Francis Neat

Thomas Regnier

Daniel Moore

Darren R. Grӧcke

Neil Hall

Xuan Liu

John Kenny

Anita Lucaci

Margaret Hughes

Sam Haldenby



Contributors

Abstract

Intraspecific diversity promotes evolutionary change, and when partitioned among geographic regions or habitats can form the basis for speciation. Marine species live in an environment that can provide as much scope for diversification in the vertical as in the horizontal dimension. Understanding the relevant mechanisms will contribute significantly to our understanding of eco-evolutionary processes and effective biodiversity conservation. Here, we provide an annotated genome assembly for the deep-sea fish Coryphaenoides rupestris and re-sequencing data to show that differentiation at non-synonymous sites in functional loci distinguishes individuals living at different depths, independent of horizontal spatial distance. Our data indicate disruptive selection at these loci; however, we find no clear evidence for differentiation at neutral loci that may indicate assortative mating. We propose that individuals with distinct genotypes at relevant loci segregate by depth as they mature (supported by survey data), which may be associated with ecotype differentiation linked to distinct phenotypic requirements at different depths.

Citation

Gaither, M. R., Gkafas, G. A., de Jong, M., Sarigol, F., Neat, F., Regnier, T., …Hoelzel, A. R. (2018). Genomics of habitat choice and adaptive evolution in a deep-sea fish. Nature Ecology and Evolution, 2(4), 680-687. https://doi.org/10.1038/s41559-018-0482-x

Journal Article Type Article
Acceptance Date Jan 22, 2018
Online Publication Date Mar 5, 2018
Publication Date Mar 5, 2018
Deposit Date Oct 13, 2017
Publicly Available Date Mar 9, 2018
Journal Nature Ecology and Evolution
Publisher Nature Research
Peer Reviewed Peer Reviewed
Volume 2
Issue 4
Pages 680-687
DOI https://doi.org/10.1038/s41559-018-0482-x

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Publisher Licence URL
http://creativecommons.org/licenses/by/4.0/

Copyright Statement
Advance online version Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.






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