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Genomic Differentiation and Demographic Histories of Two Closely Related Salicaceae Species

Populus alba (P. alba) and Populus davidiana (P. davidiana) are important plant species for answering a variety of issues on species evolution due to their wide distribution and ability to adapt to a variety of environments and climates. Even though P. alba and P. davidiana belong to ecologically an...

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Autores principales: Hou, Zhe, Li, Ang
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9210983/
https://www.ncbi.nlm.nih.gov/pubmed/35747877
http://dx.doi.org/10.3389/fpls.2022.911467
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author Hou, Zhe
Li, Ang
author_facet Hou, Zhe
Li, Ang
author_sort Hou, Zhe
collection PubMed
description Populus alba (P. alba) and Populus davidiana (P. davidiana) are important plant species for answering a variety of issues on species evolution due to their wide distribution and ability to adapt to a variety of environments and climates. Even though P. alba and P. davidiana belong to ecologically and economically important forest trees in the Northern Hemisphere, little is known about their genomic landscape and genome divergence during speciation. We re-sequenced 20 and 19 members of P. davidiana and P. alba, respectively, and found that the Dxy value between P. alba and P. davidiana was 0.2658, whereas the F(ST) values were 0.2988, indicating that the genetic divergence was fairly clear. Populus davidiana and P. alba diverged from the ancestor in the middle Pleistocene, c. 0.80 Ma (95% HPD: 0.79–0.81 Ma). The population sizes of P. davidiana increased ~20,000 years ago after a considerable long-term decline following divergence. However, after differentiation, the effective population size of P. alba expanded slightly before experiencing a long-term bottleneck effect. According to the expectation of allopatric speciation, we found a significant number of genomic differentiation sites in both species' speciation events, and the majority of these genomic differentiation regions can be attributed to neutral evolutionary processes. Nevertheless, the regions with extreme divergence exist in abundance, indicating that natural selection has had an impact. Positive selection can be found in highly differentiated regions, while long-term balancing selection traits can be easily observed in low differentiated regions. According to these findings, climate differences over the Quaternary, as well as variance in linked selection and recombination, all contributed significantly to genomic divergence during allopatric speciation of the two aspens.
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spelling pubmed-92109832022-06-22 Genomic Differentiation and Demographic Histories of Two Closely Related Salicaceae Species Hou, Zhe Li, Ang Front Plant Sci Plant Science Populus alba (P. alba) and Populus davidiana (P. davidiana) are important plant species for answering a variety of issues on species evolution due to their wide distribution and ability to adapt to a variety of environments and climates. Even though P. alba and P. davidiana belong to ecologically and economically important forest trees in the Northern Hemisphere, little is known about their genomic landscape and genome divergence during speciation. We re-sequenced 20 and 19 members of P. davidiana and P. alba, respectively, and found that the Dxy value between P. alba and P. davidiana was 0.2658, whereas the F(ST) values were 0.2988, indicating that the genetic divergence was fairly clear. Populus davidiana and P. alba diverged from the ancestor in the middle Pleistocene, c. 0.80 Ma (95% HPD: 0.79–0.81 Ma). The population sizes of P. davidiana increased ~20,000 years ago after a considerable long-term decline following divergence. However, after differentiation, the effective population size of P. alba expanded slightly before experiencing a long-term bottleneck effect. According to the expectation of allopatric speciation, we found a significant number of genomic differentiation sites in both species' speciation events, and the majority of these genomic differentiation regions can be attributed to neutral evolutionary processes. Nevertheless, the regions with extreme divergence exist in abundance, indicating that natural selection has had an impact. Positive selection can be found in highly differentiated regions, while long-term balancing selection traits can be easily observed in low differentiated regions. According to these findings, climate differences over the Quaternary, as well as variance in linked selection and recombination, all contributed significantly to genomic divergence during allopatric speciation of the two aspens. Frontiers Media S.A. 2022-06-07 /pmc/articles/PMC9210983/ /pubmed/35747877 http://dx.doi.org/10.3389/fpls.2022.911467 Text en Copyright © 2022 Hou and Li. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Plant Science
Hou, Zhe
Li, Ang
Genomic Differentiation and Demographic Histories of Two Closely Related Salicaceae Species
title Genomic Differentiation and Demographic Histories of Two Closely Related Salicaceae Species
title_full Genomic Differentiation and Demographic Histories of Two Closely Related Salicaceae Species
title_fullStr Genomic Differentiation and Demographic Histories of Two Closely Related Salicaceae Species
title_full_unstemmed Genomic Differentiation and Demographic Histories of Two Closely Related Salicaceae Species
title_short Genomic Differentiation and Demographic Histories of Two Closely Related Salicaceae Species
title_sort genomic differentiation and demographic histories of two closely related salicaceae species
topic Plant Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9210983/
https://www.ncbi.nlm.nih.gov/pubmed/35747877
http://dx.doi.org/10.3389/fpls.2022.911467
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