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Gene duplications and phylogenomic conflict underlie major pulses of phenotypic evolution in gymnosperms
Stull,Gregory W.; Qu,Xiao-Jian; Parins-Fukuchi,Caroline; Yang,Ying-Ying; Yang,Jun-Bo; Yang,Zhi-Yun; Hu,Yi; Ma,Hong; Soltis,Pamela S.; Soltis,Douglas E.; Li,De-Zhu; Smith,Stephen A.; Yi,Ting-Shuang
2021
Source PublicationNATURE PLANTS
ISSN2055-026X
Volume7Issue:8Pages:1015+
AbstractInferring the intrinsic and extrinsic drivers of species diversification and phenotypic disparity across the tree of life is a major challenge in evolutionary biology. In green plants, polyploidy (or whole-genome duplication, WGD) is known to play a major role in microevolution and speciation, but the extent to which WGD has shaped macroevolutionary patterns of diversification and phenotypic innovation across plant phylogeny remains an open question. Here, we examine the relationship of various facets of genomic evolution-including gene and genome duplication, genome size, and chromosome number-with macroevolutionary patterns of phenotypic innovation, species diversification, and climatic occupancy in gymnosperms. We show that genomic changes, such as WGD and genome-size shifts, underlie the origins of most major extant gymnosperm clades, and notably, our results support an ancestral WGD in the gymnosperm lineage. Spikes of gene duplication typically coincide with major spikes of phenotypic innovation, while increased rates of phenotypic evolution are typically found at nodes with high gene-tree conflict, representing historic population-level dynamics during speciation. Most shifts in gymnosperm diversification since the rise of angiosperms are decoupled from putative WGDs and instead are associated with increased rates of climatic occupancy evolution, particularly in cooler and/or more arid climatic conditions, suggesting that ecological opportunity, especially in the later Cenozoic, and environmental heterogeneity have driven a resurgence of gymnosperm diversification. Our study provides critical insight on the processes underlying diversification and phenotypic evolution in gymnosperms, with important broader implications for the major drivers of both micro- and macroevolution in plants.By examining the relationship of various facets of genomic changes with phenotypic evolution, this study found that pulses of phenotypic innovation in gymnosperms are strongly associated with gene duplications and genomic conflict.
KeywordSEED PLANTS R PACKAGE POLYPLOIDY CONIFERS TREE GENERATION INFERENCE ANCIENT DISCORDANCE ANGIOSPERMS
DOI10.1038/s41477-021-00964-4
WOS IDWOS:000674542500002
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Document Type期刊论文
Identifierhttp://ir.kib.ac.cn/handle/151853/73534
Collection中国科学院昆明植物研究所
Affiliation1.Chinese Acad Sci, Kunming Inst Bot, Germplasm Bank Wild Species, Kunming, Yunnan, Peoples R China
2.Chinese Acad Sci, Kunming Inst Bot, CAS Key Lab Plant Divers & Biogeog East Asia, Kunming, Yunnan, Peoples R China
3.Shandong Normal Univ, Coll Life Sci, Shandong Prov Key Lab Plant Stress Res, Jinan, Peoples R China
4.Univ Chicago, Dept Geophys Sci, 5734 S Ellis Ave, Chicago, IL 60637 USA
5.Penn State Univ, Huck Inst Life Sci, Dept Biol, University Pk, PA 16802 USA
6.Soltis, Pamela S.; Soltis, Douglas E.] Univ Florida, Florida Museum Nat Hist, Gainesville, FL 32611 USA
7.Soltis, Douglas E.] Univ Florida, Dept Biol, Gainesville, FL 32611 USA
8.Smith, Stephen A.] Univ Michigan, Dept Ecol & Evolutionary Biol, Ann Arbor, MI 48109 USA
Recommended Citation
GB/T 7714
Stull,Gregory W.,Qu,Xiao-Jian,Parins-Fukuchi,Caroline,et al. Gene duplications and phylogenomic conflict underlie major pulses of phenotypic evolution in gymnosperms[J]. NATURE PLANTS,2021,7(8):1015+.
APA Stull,Gregory W..,Qu,Xiao-Jian.,Parins-Fukuchi,Caroline.,Yang,Ying-Ying.,Yang,Jun-Bo.,...&Yi,Ting-Shuang.(2021).Gene duplications and phylogenomic conflict underlie major pulses of phenotypic evolution in gymnosperms.NATURE PLANTS,7(8),1015+.
MLA Stull,Gregory W.,et al."Gene duplications and phylogenomic conflict underlie major pulses of phenotypic evolution in gymnosperms".NATURE PLANTS 7.8(2021):1015+.
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