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A need for standardized reporting of introgression: Insights from studies across eukaryotes
With the rise of affordable next‐generation sequencing technology, introgression—or the exchange of genetic materials between taxa—has become widely perceived to be a ubiquitous phenomenon in nature. Although this claim is supported by several keystone studies, no thorough assessment of the frequenc...
Autores principales: | , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
John Wiley and Sons Inc.
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9554761/ https://www.ncbi.nlm.nih.gov/pubmed/36254258 http://dx.doi.org/10.1002/evl3.294 |
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author | Dagilis, Andrius J. Peede, David Coughlan, Jenn M. Jofre, Gaston I. D'Agostino, Emmanuel R. R. Mavengere, Heidi Tate, Alexander D. Matute, Daniel R. |
author_facet | Dagilis, Andrius J. Peede, David Coughlan, Jenn M. Jofre, Gaston I. D'Agostino, Emmanuel R. R. Mavengere, Heidi Tate, Alexander D. Matute, Daniel R. |
author_sort | Dagilis, Andrius J. |
collection | PubMed |
description | With the rise of affordable next‐generation sequencing technology, introgression—or the exchange of genetic materials between taxa—has become widely perceived to be a ubiquitous phenomenon in nature. Although this claim is supported by several keystone studies, no thorough assessment of the frequency of introgression across eukaryotes in nature has been performed to date. In this manuscript, we aim to address this knowledge gap by examining patterns of introgression across eukaryotes. We collated a single statistic, Patterson's D, which can be used as a test for introgression across 123 studies to further assess how taxonomic group, divergence time, and sequencing technology influence reports of introgression. Overall, introgression has mostly been measured in plants and vertebrates, with less attention given to the rest of the Eukaryotes. We find that the most frequently used metrics to detect introgression are difficult to compare across studies and even more so across biological systems due to differences in study effort, reporting standards, and methodology. Nonetheless, our analyses reveal several intriguing patterns, including the observation that differences in sequencing technologies may bias values of Patterson's D and that introgression may differ throughout the course of the speciation process. Together, these results suggest the need for a unified approach to quantifying introgression in natural communities and highlight important areas of future research that can be better assessed once this unified approach is met. |
format | Online Article Text |
id | pubmed-9554761 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | John Wiley and Sons Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-95547612022-10-16 A need for standardized reporting of introgression: Insights from studies across eukaryotes Dagilis, Andrius J. Peede, David Coughlan, Jenn M. Jofre, Gaston I. D'Agostino, Emmanuel R. R. Mavengere, Heidi Tate, Alexander D. Matute, Daniel R. Evol Lett Letters With the rise of affordable next‐generation sequencing technology, introgression—or the exchange of genetic materials between taxa—has become widely perceived to be a ubiquitous phenomenon in nature. Although this claim is supported by several keystone studies, no thorough assessment of the frequency of introgression across eukaryotes in nature has been performed to date. In this manuscript, we aim to address this knowledge gap by examining patterns of introgression across eukaryotes. We collated a single statistic, Patterson's D, which can be used as a test for introgression across 123 studies to further assess how taxonomic group, divergence time, and sequencing technology influence reports of introgression. Overall, introgression has mostly been measured in plants and vertebrates, with less attention given to the rest of the Eukaryotes. We find that the most frequently used metrics to detect introgression are difficult to compare across studies and even more so across biological systems due to differences in study effort, reporting standards, and methodology. Nonetheless, our analyses reveal several intriguing patterns, including the observation that differences in sequencing technologies may bias values of Patterson's D and that introgression may differ throughout the course of the speciation process. Together, these results suggest the need for a unified approach to quantifying introgression in natural communities and highlight important areas of future research that can be better assessed once this unified approach is met. John Wiley and Sons Inc. 2022-07-25 /pmc/articles/PMC9554761/ /pubmed/36254258 http://dx.doi.org/10.1002/evl3.294 Text en © 2022 The Authors. Evolution Letters published by Wiley Periodicals LLC on behalf of Society for the Study of Evolution (SSE) and European Society for Evolutionary Biology (ESEB). https://creativecommons.org/licenses/by/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Letters Dagilis, Andrius J. Peede, David Coughlan, Jenn M. Jofre, Gaston I. D'Agostino, Emmanuel R. R. Mavengere, Heidi Tate, Alexander D. Matute, Daniel R. A need for standardized reporting of introgression: Insights from studies across eukaryotes |
title | A need for standardized reporting of introgression: Insights from studies across eukaryotes |
title_full | A need for standardized reporting of introgression: Insights from studies across eukaryotes |
title_fullStr | A need for standardized reporting of introgression: Insights from studies across eukaryotes |
title_full_unstemmed | A need for standardized reporting of introgression: Insights from studies across eukaryotes |
title_short | A need for standardized reporting of introgression: Insights from studies across eukaryotes |
title_sort | need for standardized reporting of introgression: insights from studies across eukaryotes |
topic | Letters |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9554761/ https://www.ncbi.nlm.nih.gov/pubmed/36254258 http://dx.doi.org/10.1002/evl3.294 |
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