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

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posted on 2023-05-18, 18:19 authored by Bruniche-Olsen, A, Austin, JJ, Menna JonesMenna Jones, Barbara HollandBarbara Holland, Christopher BurridgeChristopher Burridge
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.

Funding

Australian Research Council

History

Publication title

PLoS One

Volume

11

Article number

e0147875

Number

e0147875

Pagination

1-15

ISSN

1932-6203

Department/School

School of Natural Sciences

Publisher

Public Library of Science

Place of publication

United States of America

Rights 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/

Repository Status

  • Open

Socio-economic Objectives

Expanding knowledge in the biological sciences

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