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Detecting selection on temporal and spatial scales: a genomic time-series assessment of selective responses to devil facial tumor disease

Citation

Bruniche-Olsen, A and Austin, JJ and Jones, ME and Holland, BR and Burridge, CP, Detecting selection on temporal and spatial scales: a genomic time-series assessment of selective responses to devil facial tumor disease, PLoS One, 11, (3) Article e0147875. ISSN 1932-6203 (2016) [Refereed Article]


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Copyright Statement

Copyright: © 2016 Brüniche-Olsen et al. Licensed under Creative Commons Attribution 4.0 International (CC BY 4.0) http://creativecommons.org/licenses/by/4.0/

DOI: doi:10.1371/journal.pone.0147875

Abstract

Detecting loci under selection is an important task in evolutionary biology. In conservation genetics detecting selection is key to investigating adaptation to the spread of infectious disease. Loci under selection can be detected on a spatial scale, accounting for differences in demographic history among populations, or on a temporal scale, tracing changes in allele frequencies over time. Here we use these two approaches to investigate selective responses to the spread of an infectious cancer - devil facial tumor disease (DFTD) - that since 1996 has ravaged the Tasmanian devil (Sarcophilus harrisii). Using time-series ‘restriction site associated DNA’ (RAD) markers from populations pre- and post DFTD arrival, and DFTD free populations, we infer loci under selection due to DFTD and investigate signatures of selection that are incongruent among methods, populations, and times. The lack of congruence among populations influenced by DFTD with respect to inferred loci under selection, and the direction of that selection, fail to implicate a consistent selective role for DFTD. Instead genetic drift is more likely driving the observed allele frequency changes over time. Our study illustrates the importance of applying methods with different performance optima e.g. accounting for population structure and background selection, and assessing congruence of the results.

Item Details

Item Type:Refereed Article
Keywords:Tasmanian devil, devil facial tumor disease (DFTD), selection, conservation genetics, genetic drift
Research Division:Biological Sciences
Research Group:Genetics
Research Field:Population, Ecological and Evolutionary Genetics
Objective Division:Expanding Knowledge
Objective Group:Expanding Knowledge
Objective Field:Expanding Knowledge in the Biological Sciences
Author:Bruniche-Olsen, A (Ms Anna Bruniche-Olsen)
Author:Jones, ME (Associate Professor Menna Jones)
Author:Holland, BR (Associate Professor Barbara Holland)
Author:Burridge, CP (Dr Christopher Burridge)
ID Code:107810
Year Published:2016
Funding Support:Australian Research Council (FT100100031)
Web of Science® Times Cited:3
Deposited By:Mathematics and Physics
Deposited On:2016-03-24
Last Modified:2017-11-01
Downloads:74 View Download Statistics

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