Inference of natural selection from ancient DNA

Dehasque, Marianne; Ávila Arcos, María C.; Díez-Del-Molino, David; Fumagalli, Matteo; Guschanski, Katerina; Lorenzen, Eline D.; Malaspinas, Anna-Sapfo; Marquès i Bonet, Tomàs, 1975-; Martin, Michael D.; Murray, Gemma G. R.; Papadopulos, Alexander S. T.; Overgaard Therkildsen, Nina; Wegmann, Daniel; Dalén, Love; Foote, Andrew D.

Inference of natural selection from ancient DNA

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dc.contributor.author Dehasque, Marianne
dc.contributor.author Ávila Arcos, María C.
dc.contributor.author Díez-Del-Molino, David
dc.contributor.author Fumagalli, Matteo
dc.contributor.author Guschanski, Katerina
dc.contributor.author Lorenzen, Eline D.
dc.contributor.author Malaspinas, Anna-Sapfo
dc.contributor.author Marquès i Bonet, Tomàs, 1975-
dc.contributor.author Martin, Michael D.
dc.contributor.author Murray, Gemma G. R.
dc.contributor.author Papadopulos, Alexander S. T.
dc.contributor.author Overgaard Therkildsen, Nina
dc.contributor.author Wegmann, Daniel
dc.contributor.author Dalén, Love
dc.contributor.author Foote, Andrew D.
dc.date.accessioned 2022-04-29T10:41:50Z
dc.date.available 2022-04-29T10:41:50Z
dc.date.issued 2020
dc.description.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.
dc.description.sponsorship This work resulted from a synthesis and writing retreat as part of ADAPT (Ancient DNA studies of Adaptive Processes through Time) Special Topic Network generously funded by the European Society for Evolutionary Biology (ESEB). ADF was supported by European Union's Horizon 2020 research and innovation program under the Marie Skłodowska‐Curie grant agreement No. 663830. ASM was supported by a European Research Council (ERC) grant. LD and MD acknowledge fudning from the Swedish Research Coucil (VR grant 2017‐04647)
dc.format.mimetype application/pdf
dc.identifier.citation Dehasque M, Ávila-Arcos MC, Díez-Del-Molino D, Fumagalli M, Guschanski K, Lorenzen ED et al. Inference of natural selection from ancient DNA. Evol Lett. 2020 Mar 18;4(2):94-108. DOI:10.1002/evl3.165
dc.identifier.doi http://dx.doi.org/10.1002/evl3.165
dc.identifier.issn 2056-3744
dc.identifier.uri http://hdl.handle.net/10230/52946
dc.language.iso eng
dc.publisher Wiley Open Access
dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/663830
dc.rights © 2020 Marianne Dehasque et al. 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 http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited
dc.rights.accessRights info:eu-repo/semantics/openAccess
dc.rights.uri http://creativecommons.org/licenses/by/4.0/
dc.subject.other Adaptació (Biologia)
dc.subject.other ADN antic
dc.subject.other Selecció natural
dc.subject.other Genòmica
dc.title Inference of natural selection from ancient DNA
dc.type info:eu-repo/semantics/article
dc.type.version info:eu-repo/semantics/publishedVersion

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