Inference of natural selection from ancient DNA
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Published version
Author(s)
Dehasque, Marianne
avila-Arcos, Maria C
Diez-del-Molino, David
Fumagalli, Matteo
Guschanski, Katerina
Type
Journal Article
Abstract
Evolutionary processes, including selection, can be indirectly inferred based on patterns of genomic variation among contemporary populations or species. However, this often requires unrealistic assumptions of ancestral demography and selective regimes. Sequencing ancient DNA from temporally spaced samples can inform about past selection processes, as time series data allow direct quantification of population parameters collected before, during, and after genetic changes driven by selection. In this Comment and Opinion, we advocate for the inclusion of temporal sampling and the generation of paleogenomic datasets in evolutionary biology, and highlight some of the recent advances that have yet to be broadly applied by evolutionary biologists. In doing so, we consider the expected signatures of balancing, purifying, and positive selection in time series data, and detail how this can advance our understanding of the chronology and tempo of genomic change driven by selection. However, we also recognize the limitations of such data, which can suffer from postmortem damage, fragmentation, low coverage, and typically low sample size. We therefore highlight the many assumptions and considerations associated with analyzing paleogenomic data and the assumptions associated with analytical methods.
Date Issued
2020-03-18
Date Acceptance
2020-02-02
Citation
Evolution Letters, 2020, 4 (2), pp.94-108
ISSN
2056-3744
Publisher
Wiley Open Access
Start Page
94
End Page
108
Journal / Book Title
Evolution Letters
Volume
4
Issue
2
Copyright Statement
© 2020 The Authors. Evolution Letters published by Wiley Periodicals, Inc. on behalf of Society for the Study of Evolution (SSE) and European Society for Evolutionary Biology (ESEB).
This is an open access article under the terms of the Creative Commons Attribution License http://creativecommons.org/licenses/by/4.0/, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
This is an open access article under the terms of the Creative Commons Attribution License http://creativecommons.org/licenses/by/4.0/, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
License URL
Identifier
http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000521554600001&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=1ba7043ffcc86c417c072aa74d649202
Subjects
Science & Technology
Life Sciences & Biomedicine
Evolutionary Biology
Adaptation
ancient DNA
natural selection
paleogenomics
time series
BALANCING SELECTION
DELETERIOUS MUTATIONS
GENOME SEQUENCE
MOLECULAR EVOLUTION
POPULATION-GENETICS
BAYESIAN-INFERENCE
LINKED SELECTION
RAPID EVOLUTION
COAT COLOR
SPECIATION
Publication Status
Published
Date Publish Online
2020-03-18