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Population genomics reveal deep divergence and strong geographical structure in gentians in the Hengduan Mountains

Understanding the evolutionary and ecological processes driving population differentiation and speciation can provide critical insights into the formation of biodiversity. Here, we examine the link between population genetic processes and biogeographic history underlying the generation of diversity...

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Autores principales: Fu, Peng-Cheng, Sun, Shan-Shan, Hollingsworth, Peter M., Chen, Shi-Long, Favre, Adrien, Twyford, Alex D.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9453878/
https://www.ncbi.nlm.nih.gov/pubmed/36092450
http://dx.doi.org/10.3389/fpls.2022.936761
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author Fu, Peng-Cheng
Sun, Shan-Shan
Hollingsworth, Peter M.
Chen, Shi-Long
Favre, Adrien
Twyford, Alex D.
author_facet Fu, Peng-Cheng
Sun, Shan-Shan
Hollingsworth, Peter M.
Chen, Shi-Long
Favre, Adrien
Twyford, Alex D.
author_sort Fu, Peng-Cheng
collection PubMed
description Understanding the evolutionary and ecological processes driving population differentiation and speciation can provide critical insights into the formation of biodiversity. Here, we examine the link between population genetic processes and biogeographic history underlying the generation of diversity in the Hengduan Mountains (HM), a region harboring a rich and dynamic flora. We used restriction site-associated DNA sequencing to generate 1,907 single-nucleotide polymorphisms (SNPs) and four-kb of plastid sequence in species of the Gentiana hexaphylla complex (Gentianaceae). We performed genetic clustering with spatial and non-spatial models, phylogenetic reconstructions, and ancestral range estimation, with the aim of addressing the processes influencing diversification of G. hexaphylla in the HM. We find the G. hexaphylla complex is characterized by geographic genetic structure with clusters corresponding to the South, North and the central HM. Phylogenetic reconstruction and pairwise F(ST) analyses showed deep differentiation between Southern and Northern populations in the HM. The population in Mount Taibai exhibited the highest genetic similarity to the North HM. Ancestral range estimation indicated that the G. hexaphylla complex originated in the central HM and then diverged in the Pliocene and the Early Pleistocene, before dispersing widely, resulting in the current distinct lineages. Overall, we found deep genomic differentiation in the G. hexaphylla complex corresponds to geographic barriers to dispersal in the HM and highlights a critical role of the uplift of the Daxue Mountains and subsequent climatic fluctuations underlying diversification. The colonization of G. hexaphylla in the Mount Taibai region suggests directional dispersal between the alpine flora of the Qinling Mountains and the HM.
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spelling pubmed-94538782022-09-09 Population genomics reveal deep divergence and strong geographical structure in gentians in the Hengduan Mountains Fu, Peng-Cheng Sun, Shan-Shan Hollingsworth, Peter M. Chen, Shi-Long Favre, Adrien Twyford, Alex D. Front Plant Sci Plant Science Understanding the evolutionary and ecological processes driving population differentiation and speciation can provide critical insights into the formation of biodiversity. Here, we examine the link between population genetic processes and biogeographic history underlying the generation of diversity in the Hengduan Mountains (HM), a region harboring a rich and dynamic flora. We used restriction site-associated DNA sequencing to generate 1,907 single-nucleotide polymorphisms (SNPs) and four-kb of plastid sequence in species of the Gentiana hexaphylla complex (Gentianaceae). We performed genetic clustering with spatial and non-spatial models, phylogenetic reconstructions, and ancestral range estimation, with the aim of addressing the processes influencing diversification of G. hexaphylla in the HM. We find the G. hexaphylla complex is characterized by geographic genetic structure with clusters corresponding to the South, North and the central HM. Phylogenetic reconstruction and pairwise F(ST) analyses showed deep differentiation between Southern and Northern populations in the HM. The population in Mount Taibai exhibited the highest genetic similarity to the North HM. Ancestral range estimation indicated that the G. hexaphylla complex originated in the central HM and then diverged in the Pliocene and the Early Pleistocene, before dispersing widely, resulting in the current distinct lineages. Overall, we found deep genomic differentiation in the G. hexaphylla complex corresponds to geographic barriers to dispersal in the HM and highlights a critical role of the uplift of the Daxue Mountains and subsequent climatic fluctuations underlying diversification. The colonization of G. hexaphylla in the Mount Taibai region suggests directional dispersal between the alpine flora of the Qinling Mountains and the HM. Frontiers Media S.A. 2022-08-25 /pmc/articles/PMC9453878/ /pubmed/36092450 http://dx.doi.org/10.3389/fpls.2022.936761 Text en Copyright © 2022 Fu, Sun, Hollingsworth, Chen, Favre and Twyford. 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
Fu, Peng-Cheng
Sun, Shan-Shan
Hollingsworth, Peter M.
Chen, Shi-Long
Favre, Adrien
Twyford, Alex D.
Population genomics reveal deep divergence and strong geographical structure in gentians in the Hengduan Mountains
title Population genomics reveal deep divergence and strong geographical structure in gentians in the Hengduan Mountains
title_full Population genomics reveal deep divergence and strong geographical structure in gentians in the Hengduan Mountains
title_fullStr Population genomics reveal deep divergence and strong geographical structure in gentians in the Hengduan Mountains
title_full_unstemmed Population genomics reveal deep divergence and strong geographical structure in gentians in the Hengduan Mountains
title_short Population genomics reveal deep divergence and strong geographical structure in gentians in the Hengduan Mountains
title_sort population genomics reveal deep divergence and strong geographical structure in gentians in the hengduan mountains
topic Plant Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9453878/
https://www.ncbi.nlm.nih.gov/pubmed/36092450
http://dx.doi.org/10.3389/fpls.2022.936761
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