Genomic analyses reveal natural selection on reproduction related genes between two closely related Populus (Salicaceae) species

Identifying the factors that cause reproductive isolation and their relative importance in species divergence is crucial to our understanding of speciation processes. In most species, natural selection is commonly considered to play a large role in driving speciation. Based on whole genome re‐sequen...

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Published inJournal of systematics and evolution : JSE Vol. 61; no. 5; pp. 852 - 867
Main Authors Tian, Yang, Liu, Shu‐Yu, Ingvarsson, Pär K., Zhao, Dan‐Dan, Wang, Li, Abuduhamiti, Baoerjiang, Cai, Jin‐Feng, Wu, Zhi‐Qiang, Zhang, Jian‐Guo, Wang, Zhao‐Shan
Format Journal Article
LanguageEnglish
Published Beijing Wiley Subscription Services, Inc 01.09.2023
Subjects
Biological Systematics
Biologisk systematik
China
climate
demographic histories
Divergence
Evolutionary Biology
Evolutionsbiologi
Gene sequencing
Genes
Genomic analysis
Genomics
Haplotypes
Natural selection
P. adenopoda
P. alba
P. tomentosa
Phylogeny
Populus alba
Populus tomentosa
reproduction
Reproductive isolation
sequence analysis
Speciation
Species
whole genome re‐sequencing
China
Online AccessGet full text
ISSN1674-4918
1759-6831
1759-6831
DOI10.1111/jse.12911

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Abstract Identifying the factors that cause reproductive isolation and their relative importance in species divergence is crucial to our understanding of speciation processes. In most species, natural selection is commonly considered to play a large role in driving speciation. Based on whole genome re‐sequencing data from 27 Populus alba and 28 Populus adenopoda individuals, we explored the factors related to reproductive isolation of these two closely related species. The results showed that the two species diverged ~5–10 million years ago (Ma), when the Qinghai–Tibet Plateau reached a certain height and the inland climate of the Asian continent became arid. In highly differentiated genomic regions, the relative divergence (FST) and absolute divergence (dxy) were significantly higher than the genomic background, θπ and shared polymorphisms decreased whereas fixed differences increased, which indicated that natural selection played a key role in the reproductive isolation of the two species. In addition, we found several genes that were related to reproduction that may be involved in explaining the reproductive isolation. Using phylogenetic trees resolved from haplotype data of Populus tomentosa and P. adenopoda, the maternal origin of P. tomentosa from P. adenopoda was likely to be located in Hubei and Chongqing Provinces. Using the re‐sequencing data of 27 Populus alba and 28 Populus adenopoda, it was identified that the two species have obvious genetic structure. The uplift of the Qinghai–Tibet Plateau and climate change make the two populations differentiate and produce post‐zygotic isolation. The hybrid offspring of Populus tomentosa are sterile. Natural selection plays an important role in this process.
AbstractList Identifying the factors that cause reproductive isolation and their relative importance in species divergence is crucial to our understanding of speciation processes. In most species, natural selection is commonly considered to play a large role in driving speciation. Based on whole genome re-sequencing data from 27 Populus alba and 28 Populus adenopoda individuals, we explored the factors related to reproductive isolation of these two closely related species. The results showed that the two species diverged similar to 5-10 million years ago (Ma), when the Qinghai-Tibet Plateau reached a certain height and the inland climate of the Asian continent became arid. In highly differentiated genomic regions, the relative divergence (F-ST) and absolute divergence (d(xy)) were significantly higher than the genomic background, theta pi and shared polymorphisms decreased whereas fixed differences increased, which indicated that natural selection played a key role in the reproductive isolation of the two species. In addition, we found several genes that were related to reproduction that may be involved in explaining the reproductive isolation. Using phylogenetic trees resolved from haplotype data of Populus tomentosa and P. adenopoda, the maternal origin of P. tomentosa from P. adenopoda was likely to be located in Hubei and Chongqing Provinces.
Identifying the factors that cause reproductive isolation and their relative importance in species divergence is crucial to our understanding of speciation processes. In most species, natural selection is commonly considered to play a large role in driving speciation. Based on whole genome re‐sequencing data from 27 Populus alba and 28 Populus adenopoda individuals, we explored the factors related to reproductive isolation of these two closely related species. The results showed that the two species diverged ~5–10 million years ago (Ma), when the Qinghai–Tibet Plateau reached a certain height and the inland climate of the Asian continent became arid. In highly differentiated genomic regions, the relative divergence (FST) and absolute divergence (dxy) were significantly higher than the genomic background, θπ and shared polymorphisms decreased whereas fixed differences increased, which indicated that natural selection played a key role in the reproductive isolation of the two species. In addition, we found several genes that were related to reproduction that may be involved in explaining the reproductive isolation. Using phylogenetic trees resolved from haplotype data of Populus tomentosa and P. adenopoda, the maternal origin of P. tomentosa from P. adenopoda was likely to be located in Hubei and Chongqing Provinces.
Identifying the factors that cause reproductive isolation and their relative importance in species divergence is crucial to our understanding of speciation processes. In most species, natural selection is commonly considered to play a large role in driving speciation. Based on whole genome re‐sequencing data from 27 Populus alba and 28 Populus adenopoda individuals, we explored the factors related to reproductive isolation of these two closely related species. The results showed that the two species diverged ~5–10 million years ago (Ma), when the Qinghai–Tibet Plateau reached a certain height and the inland climate of the Asian continent became arid. In highly differentiated genomic regions, the relative divergence (FST) and absolute divergence (dxy) were significantly higher than the genomic background, θπ and shared polymorphisms decreased whereas fixed differences increased, which indicated that natural selection played a key role in the reproductive isolation of the two species. In addition, we found several genes that were related to reproduction that may be involved in explaining the reproductive isolation. Using phylogenetic trees resolved from haplotype data of Populus tomentosa and P. adenopoda, the maternal origin of P. tomentosa from P. adenopoda was likely to be located in Hubei and Chongqing Provinces. Using the re‐sequencing data of 27 Populus alba and 28 Populus adenopoda, it was identified that the two species have obvious genetic structure. The uplift of the Qinghai–Tibet Plateau and climate change make the two populations differentiate and produce post‐zygotic isolation. The hybrid offspring of Populus tomentosa are sterile. Natural selection plays an important role in this process.
Identifying the factors that cause reproductive isolation and their relative importance in species divergence is crucial to our understanding of speciation processes. In most species, natural selection is commonly considered to play a large role in driving speciation. Based on whole genome re‐sequencing data from 27 Populus alba and 28 Populus adenopoda individuals, we explored the factors related to reproductive isolation of these two closely related species. The results showed that the two species diverged ~5–10 million years ago (Ma), when the Qinghai–Tibet Plateau reached a certain height and the inland climate of the Asian continent became arid. In highly differentiated genomic regions, the relative divergence ( F ST ) and absolute divergence ( d xy ) were significantly higher than the genomic background, θπ and shared polymorphisms decreased whereas fixed differences increased, which indicated that natural selection played a key role in the reproductive isolation of the two species. In addition, we found several genes that were related to reproduction that may be involved in explaining the reproductive isolation. Using phylogenetic trees resolved from haplotype data of Populus tomentosa and P. adenopoda , the maternal origin of P. tomentosa from P. adenopoda was likely to be located in Hubei and Chongqing Provinces.
Identifying the factors that cause reproductive isolation and their relative importance in species divergence is crucial to our understanding of speciation processes. In most species, natural selection is commonly considered to play a large role in driving speciation. Based on whole genome re‐sequencing data from 27 Populus alba and 28 Populus adenopoda individuals, we explored the factors related to reproductive isolation of these two closely related species. The results showed that the two species diverged ~5–10 million years ago (Ma), when the Qinghai–Tibet Plateau reached a certain height and the inland climate of the Asian continent became arid. In highly differentiated genomic regions, the relative divergence (FST) and absolute divergence (dₓy) were significantly higher than the genomic background, θπ and shared polymorphisms decreased whereas fixed differences increased, which indicated that natural selection played a key role in the reproductive isolation of the two species. In addition, we found several genes that were related to reproduction that may be involved in explaining the reproductive isolation. Using phylogenetic trees resolved from haplotype data of Populus tomentosa and P. adenopoda, the maternal origin of P. tomentosa from P. adenopoda was likely to be located in Hubei and Chongqing Provinces.
Author Abuduhamiti, Baoerjiang
Wang, Li
Zhao, Dan‐Dan
Liu, Shu‐Yu
Ingvarsson, Pär K.
Wang, Zhao‐Shan
Cai, Jin‐Feng
Tian, Yang
Zhang, Jian‐Guo
Wu, Zhi‐Qiang
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  fullname: Tian, Yang
  organization: Nanjing Forestry University
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  fullname: Liu, Shu‐Yu
  organization: Chinese Academy of Forestry
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  organization: Swedish University of Agricultural Sciences
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  fullname: Wang, Li
  organization: Chinese Academy of Forestry
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  organization: Chinese Academy of Agricultural Sciences
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  givenname: Jian‐Guo
  surname: Zhang
  fullname: Zhang, Jian‐Guo
  email: zhangjg@caf.ac.cn
  organization: Nanjing Forestry University
– sequence: 10
  givenname: Zhao‐Shan
  orcidid: 0000-0002-8221-1420
  surname: Wang
  fullname: Wang, Zhao‐Shan
  email: w@caf.ac.cn
  organization: Nanjing Forestry University
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Snippet Identifying the factors that cause reproductive isolation and their relative importance in species divergence is crucial to our understanding of speciation...
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SubjectTerms Biological Systematics
Biologisk systematik
China
climate
demographic histories
Divergence
Evolutionary Biology
Evolutionsbiologi
Gene sequencing
Genes
Genomic analysis
Genomics
Haplotypes
Natural selection
P. adenopoda
P. alba
P. tomentosa
Phylogeny
Populus alba
Populus tomentosa
reproduction
Reproductive isolation
sequence analysis
Speciation
Species
whole genome re‐sequencing
Title Genomic analyses reveal natural selection on reproduction related genes between two closely related Populus (Salicaceae) species
URI https://onlinelibrary.wiley.com/doi/abs/10.1111%2Fjse.12911
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Volume 61
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