文献类型：期刊文献

英文题名：Combined genotype and phenotype analyses reveal patterns of genomic adaptation to local environments in the subtropical oak Quercus acutissima

作者：Gao, Jie[1,2] Liu, Zhi-Long[3] Zhao, Wei[4] Tomlinson, Kyle W.[2,5] Xia, Shang-Wen[1] Zeng, Qing-Yin[6] Wang, Xiao-Ru[4] Chen, Jin[1]

第一作者：Gao, Jie

通信作者：Gao, J[1];Gao, J[2]

机构：[1]Chinese Acad Sci, CAS Key Lab Trop Forest Ecol, Xishuangbanna Trop Bot Garden, Menglun 666303, Yunnan, Peoples R China;[2]Chinese Acad Sci, Core Bot Gardens, Ctr Conservat Biol, Menglun 666303, Yunnan, Peoples R China;[3]Chinese Acad Forestry, Expt Ctr Trop Forestry, Pingxiang 532600, Guangxi Zhuang, Peoples R China;[4]Umea Univ, Dept Ecol & Environm Sci, UPSC, S-90187 Umea, Sweden;[5]Chinese Acad Sci, Ctr Integrat Conservat, Xishuangbanna Trop Bot Garden, Menglun 666303, Yunnan, Peoples R China;[6]Chinese Acad Forestry, State Key Lab Tree Genet & Breeding, Beijing 100091, Peoples R China

年份：2021

卷号：59

期号：3

起止页码：541-556

外文期刊名：JOURNAL OF SYSTEMATICS AND EVOLUTION

收录：;Scopus(收录号：2-s2.0-85080976413);WOS:【SCI-EXPANDED(收录号:WOS:000657081700010)】；

基金：We thank Professor Doyle McKey (University of Montpellier, France) for valuable suggestions and English revision of the manuscript. We acknowledge TopEdit for linguistic editing and proofreading during the preparation of this manuscript. Di Zhang helped with the NGS data analysis. We thank Robin K. Bagley from the University of Kentucky for the kind help with fastsimcoal2 analysis. Genomic data processing and analyses were conducted at the High Performance Computing Center North, Sweden. This study was supported by grants from the National Natural Science Foundation of China (NSFC 31300560, 31470436, and 31770701).

语种：英文

外文关键词：demographic history; isolation by distance; isolation by environment; local adaptation; phenotype variation; RAD sequencing

摘要：Understanding the effects of the demographic dynamics and environmental heterogeneity on the genomic variation of forest species is important, not only for uncovering the evolutionary history of the species, but also for predicting their ability to adapt to climate change. In this study, we combined a common garden experiment with range-wide population genomics analyses to infer the demographic history and characterize patterns of local adaptation in a subtropical oak species, Quercus acutissima (Carruthers). We scanned approximately 8% of the oak genome using a balanced representation of both genic and non-genic regions and identified a total of 55 361 single nucleotide polymorphisms (SNPs) in 167 trees. Genomic diversity analyses revealed an east-west split in the species distribution range. Coalescent-based model simulations inferred a late Pleistocene divergence in Q. acutissima between the east and west groups as well as subsequent preglaciation population expansion events. Consistent with observed genetic differentiation, morphological traits also showed east-west differentiation and the biomass allocation in seedlings was significantly associated with precipitation. Environment was found to have a significant and stronger impact on the non-neutral than the neutral SNPs, and also significantly associated with the phenotypic differentiation, suggesting that, apart from the geography, environment had played a role in determining non-neutral and phenotypic variation. Our approach, which combined a common garden experiment with landscape genomics data, validated the hypothesis of local adaptation of this long-lived oak tree of subtropical China. Our study joins the small number of studies that have combined genotypic and phenotypic data to detect patterns of local adaptation.