Landscape genetics reveals that adaptive genetic divergence in Pinus bungeana (Pinaceae) is driven by environmental variables relating to ecological habitats

Abstract Background Understanding the genetic basis of local adaptation has long been the concern of biologists. Identifying these adaptive genetic variabilities is crucial not only to improve our knowledge of the genetic mechanism of local adaptation but also to explore the adaptation potential of...

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Main Authors: Xue-Xia Zhang, Bao-Guo Liu, Yong Li, Ying Liu, Yan-Xia He, Zhi-Hao Qian, Jia-Xin Li
Format: Article
Language:English
Published: BMC 2019-08-01
Series:BMC Evolutionary Biology
Subjects:
Online Access:http://link.springer.com/article/10.1186/s12862-019-1489-x
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spelling doaj-c33125c6c4734597aed31b5ee97679362021-09-02T10:47:37ZengBMCBMC Evolutionary Biology1471-21482019-08-0119111310.1186/s12862-019-1489-xLandscape genetics reveals that adaptive genetic divergence in Pinus bungeana (Pinaceae) is driven by environmental variables relating to ecological habitatsXue-Xia Zhang0Bao-Guo Liu1Yong Li2Ying Liu3Yan-Xia He4Zhi-Hao Qian5Jia-Xin Li6Innovation Platform of Molecular Biology College of Forestry, Henan Agricultural UniversityInnovation Platform of Molecular Biology College of Forestry, Henan Agricultural UniversityInnovation Platform of Molecular Biology College of Forestry, Henan Agricultural UniversityGuangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen UniversitySchool of Life Sciences, Henan UniversityInnovation Platform of Molecular Biology College of Forestry, Henan Agricultural UniversityInnovation Platform of Molecular Biology College of Forestry, Henan Agricultural UniversityAbstract Background Understanding the genetic basis of local adaptation has long been the concern of biologists. Identifying these adaptive genetic variabilities is crucial not only to improve our knowledge of the genetic mechanism of local adaptation but also to explore the adaptation potential of species. Results Using 10 natural populations and 12 start codon targeted (SCoT) markers, a total of 430 unambiguous loci were yielded. The Bayesian analysis of population structure clearly demonstrated that the 10 populations of P. bungeana could be subdivided into three groups. Redundancy analysis showed that this genetic divergence was caused by divergence selection from environmental variables related to the ecological habitats of “avoidance of flooding” and “avoidance of high temperature and humidity.” LFMM results indicated that Bio1, Bio5, Bio8, Bio12, Bio14, and Bio16, which are related to the ecological habitat of P. bungeana, were correlated with the highest numbers of environment-associated loci (EAL). Conclusions The results of EAL characterization in P. bungeana clearly supported the hypothesis that environmental variations related to the ecological habitat of species are the key drivers of species adaptive divergence. Moreover, a method to calculate the species landscape adaptation index and quantify the adaptation potential of species was proposed and verified using ecological niche modeling. This model could estimate climatically suitable areas of species spatial distribution. Taking the results together, this study improves the current understanding on the genetic basis of local adaptation.http://link.springer.com/article/10.1186/s12862-019-1489-xAdaptive genetic divergenceAdaptation potentialEnvironment-associated lociEcological niche modelingPinus bungeanaSCoT marker
collection DOAJ
language English
format Article
sources DOAJ
author Xue-Xia Zhang
Bao-Guo Liu
Yong Li
Ying Liu
Yan-Xia He
Zhi-Hao Qian
Jia-Xin Li
spellingShingle Xue-Xia Zhang
Bao-Guo Liu
Yong Li
Ying Liu
Yan-Xia He
Zhi-Hao Qian
Jia-Xin Li
Landscape genetics reveals that adaptive genetic divergence in Pinus bungeana (Pinaceae) is driven by environmental variables relating to ecological habitats
BMC Evolutionary Biology
Adaptive genetic divergence
Adaptation potential
Environment-associated loci
Ecological niche modeling
Pinus bungeana
SCoT marker
author_facet Xue-Xia Zhang
Bao-Guo Liu
Yong Li
Ying Liu
Yan-Xia He
Zhi-Hao Qian
Jia-Xin Li
author_sort Xue-Xia Zhang
title Landscape genetics reveals that adaptive genetic divergence in Pinus bungeana (Pinaceae) is driven by environmental variables relating to ecological habitats
title_short Landscape genetics reveals that adaptive genetic divergence in Pinus bungeana (Pinaceae) is driven by environmental variables relating to ecological habitats
title_full Landscape genetics reveals that adaptive genetic divergence in Pinus bungeana (Pinaceae) is driven by environmental variables relating to ecological habitats
title_fullStr Landscape genetics reveals that adaptive genetic divergence in Pinus bungeana (Pinaceae) is driven by environmental variables relating to ecological habitats
title_full_unstemmed Landscape genetics reveals that adaptive genetic divergence in Pinus bungeana (Pinaceae) is driven by environmental variables relating to ecological habitats
title_sort landscape genetics reveals that adaptive genetic divergence in pinus bungeana (pinaceae) is driven by environmental variables relating to ecological habitats
publisher BMC
series BMC Evolutionary Biology
issn 1471-2148
publishDate 2019-08-01
description Abstract Background Understanding the genetic basis of local adaptation has long been the concern of biologists. Identifying these adaptive genetic variabilities is crucial not only to improve our knowledge of the genetic mechanism of local adaptation but also to explore the adaptation potential of species. Results Using 10 natural populations and 12 start codon targeted (SCoT) markers, a total of 430 unambiguous loci were yielded. The Bayesian analysis of population structure clearly demonstrated that the 10 populations of P. bungeana could be subdivided into three groups. Redundancy analysis showed that this genetic divergence was caused by divergence selection from environmental variables related to the ecological habitats of “avoidance of flooding” and “avoidance of high temperature and humidity.” LFMM results indicated that Bio1, Bio5, Bio8, Bio12, Bio14, and Bio16, which are related to the ecological habitat of P. bungeana, were correlated with the highest numbers of environment-associated loci (EAL). Conclusions The results of EAL characterization in P. bungeana clearly supported the hypothesis that environmental variations related to the ecological habitat of species are the key drivers of species adaptive divergence. Moreover, a method to calculate the species landscape adaptation index and quantify the adaptation potential of species was proposed and verified using ecological niche modeling. This model could estimate climatically suitable areas of species spatial distribution. Taking the results together, this study improves the current understanding on the genetic basis of local adaptation.
topic Adaptive genetic divergence
Adaptation potential
Environment-associated loci
Ecological niche modeling
Pinus bungeana
SCoT marker
url http://link.springer.com/article/10.1186/s12862-019-1489-x
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