Positive selection plays a major role in shaping signatures of differentiation across the genomic landscape of two independent Ficedula flycatcher species pairs
International audience A current debate within population genomics surrounds the relevance of patterns of genomic differentiation between closely related species for our understanding of adaptation and speciation. Mounting evidence across many taxa suggests that the same genomic regions repeatedly d...
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ftccsdartic:oai:HAL:hal-04256294v1 2023-12-17T10:50:55+01:00 Positive selection plays a major role in shaping signatures of differentiation across the genomic landscape of two independent Ficedula flycatcher species pairs Chase, Madeline Ellegren, Hans Mugal, Carina Department of Ecology and Genetics Uppsala (EBC) Uppsala University 2021-09 https://hal.science/hal-04256294 https://doi.org/10.1111/evo.14234 en eng HAL CCSD Wiley info:eu-repo/semantics/altIdentifier/doi/10.1111/evo.14234 hal-04256294 https://hal.science/hal-04256294 doi:10.1111/evo.14234 ISSN: 0014-3820 EISSN: 1558-5646 Evolution - International Journal of Organic Evolution https://hal.science/hal-04256294 Evolution - International Journal of Organic Evolution, 2021, 75 (9), pp.2179-2196. ⟨10.1111/evo.14234⟩ [SDV]Life Sciences [q-bio] info:eu-repo/semantics/article Journal articles 2021 ftccsdartic https://doi.org/10.1111/evo.14234 2023-11-18T23:41:35Z International audience A current debate within population genomics surrounds the relevance of patterns of genomic differentiation between closely related species for our understanding of adaptation and speciation. Mounting evidence across many taxa suggests that the same genomic regions repeatedly develop elevated differentiation in independent species pairs. These regions often coincide with high gene density and/or low recombination, leading to the hypothesis that the genomic differentiation landscape mostly reflects a history of background selection, and reveals little about adaptation or speciation. A comparative genomics approach with multiple independent species pairs at a timescale where gene flow and ILS are negligible permits investigating whether different evolutionary processes are responsible for generating lineage-specific versus shared patterns of species differentiation. We use whole-genome resequencing data of 195 individuals from four Ficedula flycatcher species comprising two independent species pairs: collared and pied flycatchers, and red-breasted and taiga flycatchers. We found that both shared and lineage-specific FST peaks could partially be explained by selective sweeps, with recurrent selection likely to underlie shared signatures of selection, whereas indirect evidence supports a role of recombination landscape evolution in driving lineage-specific signatures of selection. This work therefore provides evidence for an interplay of positive selection and recombination to genomic landscape evolution. Article in Journal/Newspaper taiga Archive ouverte HAL (Hyper Article en Ligne, CCSD - Centre pour la Communication Scientifique Directe) Evolution 75 9 2179 2196 |
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Archive ouverte HAL (Hyper Article en Ligne, CCSD - Centre pour la Communication Scientifique Directe) |
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English |
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[SDV]Life Sciences [q-bio] |
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[SDV]Life Sciences [q-bio] Chase, Madeline Ellegren, Hans Mugal, Carina Positive selection plays a major role in shaping signatures of differentiation across the genomic landscape of two independent Ficedula flycatcher species pairs |
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[SDV]Life Sciences [q-bio] |
description |
International audience A current debate within population genomics surrounds the relevance of patterns of genomic differentiation between closely related species for our understanding of adaptation and speciation. Mounting evidence across many taxa suggests that the same genomic regions repeatedly develop elevated differentiation in independent species pairs. These regions often coincide with high gene density and/or low recombination, leading to the hypothesis that the genomic differentiation landscape mostly reflects a history of background selection, and reveals little about adaptation or speciation. A comparative genomics approach with multiple independent species pairs at a timescale where gene flow and ILS are negligible permits investigating whether different evolutionary processes are responsible for generating lineage-specific versus shared patterns of species differentiation. We use whole-genome resequencing data of 195 individuals from four Ficedula flycatcher species comprising two independent species pairs: collared and pied flycatchers, and red-breasted and taiga flycatchers. We found that both shared and lineage-specific FST peaks could partially be explained by selective sweeps, with recurrent selection likely to underlie shared signatures of selection, whereas indirect evidence supports a role of recombination landscape evolution in driving lineage-specific signatures of selection. This work therefore provides evidence for an interplay of positive selection and recombination to genomic landscape evolution. |
author2 |
Department of Ecology and Genetics Uppsala (EBC) Uppsala University |
format |
Article in Journal/Newspaper |
author |
Chase, Madeline Ellegren, Hans Mugal, Carina |
author_facet |
Chase, Madeline Ellegren, Hans Mugal, Carina |
author_sort |
Chase, Madeline |
title |
Positive selection plays a major role in shaping signatures of differentiation across the genomic landscape of two independent Ficedula flycatcher species pairs |
title_short |
Positive selection plays a major role in shaping signatures of differentiation across the genomic landscape of two independent Ficedula flycatcher species pairs |
title_full |
Positive selection plays a major role in shaping signatures of differentiation across the genomic landscape of two independent Ficedula flycatcher species pairs |
title_fullStr |
Positive selection plays a major role in shaping signatures of differentiation across the genomic landscape of two independent Ficedula flycatcher species pairs |
title_full_unstemmed |
Positive selection plays a major role in shaping signatures of differentiation across the genomic landscape of two independent Ficedula flycatcher species pairs |
title_sort |
positive selection plays a major role in shaping signatures of differentiation across the genomic landscape of two independent ficedula flycatcher species pairs |
publisher |
HAL CCSD |
publishDate |
2021 |
url |
https://hal.science/hal-04256294 https://doi.org/10.1111/evo.14234 |
genre |
taiga |
genre_facet |
taiga |
op_source |
ISSN: 0014-3820 EISSN: 1558-5646 Evolution - International Journal of Organic Evolution https://hal.science/hal-04256294 Evolution - International Journal of Organic Evolution, 2021, 75 (9), pp.2179-2196. ⟨10.1111/evo.14234⟩ |
op_relation |
info:eu-repo/semantics/altIdentifier/doi/10.1111/evo.14234 hal-04256294 https://hal.science/hal-04256294 doi:10.1111/evo.14234 |
op_doi |
https://doi.org/10.1111/evo.14234 |
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Evolution |
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75 |
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9 |
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2179 |
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2196 |
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1785576017456267264 |