Aquatic Landscape Genomics and Environmental Effects on Genetic Variation

Jared A Grummer; Luciano B Beheregaray; Louis Bernatchez; Brian K Hand; Gordon Luikart; Shawn R Narum; Eric B Taylor

doi:10.1016/j.tree.2019.02.013

Aquatic Landscape Genomics and Environmental Effects on Genetic Variation

Trends Ecol Evol. 2019 Jul;34(7):641-654. doi: 10.1016/j.tree.2019.02.013. Epub 2019 Mar 20.

Authors

Jared A Grummer¹, Luciano B Beheregaray², Louis Bernatchez³, Brian K Hand⁴, Gordon Luikart⁴, Shawn R Narum⁵, Eric B Taylor⁶

Affiliations

¹ Department of Zoology, Biodiversity Research Centre and Beaty Biodiversity Museum, University of British Columbia, 6270 University Boulevard, Vancouver, BC V6T 1Z4, Canada. Electronic address: grummer@zoology.ubc.ca.
² Molecular Ecology Laboratory, College of Science and Engineering, Flinders University, Adelaide, SA, 5001, Australia.
³ Institut de Biologie Intégrative et des Systèmes, Université Laval, 1030 Avenue de la Médecine, Québec, QC G1V 0A6, Canada. Electronic address: http://www.twitter.com/LouBernatchez.
⁴ Flathead Lake Biological Station, Division of Biological Sciences, University of Montana 32125 Bio Station Lane, Polson, MT 59860, USA.
⁵ Columbia River Inter-Tribal Fish Commission, 3059F National Fish Hatchery Road, Hagerman, ID 83332, USA; Department of Fish and Wildlife Sciences, University of Idaho, 975 West 6th Street, Moscow, ID 83844, USA.
⁶ Department of Zoology, Biodiversity Research Centre and Beaty Biodiversity Museum, University of British Columbia, 6270 University Boulevard, Vancouver, BC V6T 1Z4, Canada.

PMID: 30904190
DOI: 10.1016/j.tree.2019.02.013

Abstract

Aquatic species represent a vast diversity of metazoans, provide humans with the most abundant animal protein source, and are of increasing conservation concern, yet landscape genomics is dominated by research in terrestrial systems. We provide researchers with a roadmap to plan aquatic landscape genomics projects by aggregating spatial and software resources and offering recommendations from sampling to data production and analyses, while cautioning against analytical pitfalls. Given the unique properties of water, we discuss the importance of considering freshwater system structure and marine abiotic properties when assessing genetic diversity, population connectivity, and signals of natural selection. When possible, genomic datasets should be parsed into neutral, adaptive, and sex-linked datasets to generate the most accurate inferences of eco-evolutionary processes.

Keywords: adaptive capacity; conservation; fragmentation; gene flow; riverscape genetics; seascape.

Publication types

Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.
Review

MeSH terms

Animals
Climate
Genetic Variation
Genetics, Population*
Genomics*
Selection, Genetic