Nuclear phylotranscriptomics and phylogenomics support numerous polyploidization events and hypotheses for the evolution of rhizobial nitrogen-fixing symbiosis in Fabaceae

doi:10.1016/j.molp.2021.02.006

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	Nuclear phylotranscriptomics and phylogenomics support numerous polyploidization events and hypotheses for the evolution of rhizobial nitrogen-fixing symbiosis in Fabaceae
	Zhao,Yiyong ; Zhang,Rong ; Jiang,Kai-Wen ; Qi,Ji ; Hu,Yi ; Guo,Jing ; Zhu,Renbin ; Zhang,Taikui ; Egan,Ashley N.; Yi,Ting-Shuang ; Huang,Chien-Hsun ; Ma,Hong
	2021
发表期刊	MOLECULAR PLANT
ISSN	1674-2052
卷号	14 期号:5 页码:748-773
摘要	Fabaceae are the third largest angiosperm family, with 765 genera and similar to 19 500 species. They are important both economically and ecologically, and global Fabaceae crops are intensively studied in part for their nitrogen-fixing ability. However, resolution of the intrasubfamilial Fabaceae phylogeny and divergence times has remained elusive, precluding a reconstruction of the evolutionary history of symbiotic nitrogen fixation in Fabaceae. Here, we report a highly resolved phylogeny using >1500 nuclear genes from newly sequenced transcriptomes and genomes of 391 species, along with other datasets, for a total of 463 legumes spanning all 6 subfamilies and 333 of 765 genera. The subfamilies are maximally supported as monophyletic. The clade comprising subfamilies Cercidoideae and Detarioideae is sister to the remaining legumes, and Duparquetioideae and Dialioideae are successive sisters to the clade of Papilionoideae and Caesalpinioideae. Molecular clock estimation revealed an early radiation of subfamilies near the K/Pg boundary, marked by mass extinction, and subsequent divergence of most tribe-level clades within similar to 15 million years. Phylogenomic analyses of thousands of gene families support 28 proposed putative whole-genome duplication/whole-genome triplication events across Fabaceae, including those at the ancestors of Fabaceae and five of the subfamilies, and further analyses supported the Fabaceae ancestral polyploidy. The evolution of rhizobial nitrogen-fixing nodulation in Fabaceae was probed by ancestral character reconstruction and phylogenetic analyses of related gene families and the results support the hypotheses of one or two switch(es) to rhizobial nodulation followed by multiple losses. Collectively, these results provide a foundation for further morphological and functional evolutionary analyses across Fabaceae.
关键词	Fabaceae Leguminosae nuclear phylogeny divergence times whole-genome duplication rhizobial nodulation COMPARATIVE GENOMICS PHYLOGENETIC PERSPECTIVES EARLY DIVERSIFICATION PENALIZED LIKELIHOOD ANCESTRAL POLYPLOIDY MOLECULAR EVOLUTION LOTUS-JAPONICUS ANALYSES REVEAL GENE LEGUMINOSAE
DOI	10.1016/j.molp.2021.02.006
WOS记录号	WOS:000646896700012
引用统计	被引频次：75[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.kib.ac.cn/handle/151853/73633
专题	中国科学院昆明植物研究所
作者单位	1.Fudan Univ, Sch Life Sci, State Key Lab Genet Engn, Shanghai 200433, Peoples R China 2.Fudan Univ, Sch Life Sci, Collaborat Innovat Ctr Genet & Dev,Ctr Evolutiona, Minist Educ,Key Lab Biodivers & Ecol Engn,Inst Pl, Shanghai 200433, Peoples R China 3.Penn State Univ, Dept Biol, Huck Inst Life Sci, University Pk, PA 16802 USA 4.Chinese Acad Sci, Kunming Inst Bot, Germplasm Bank Wild Species, Lanhei Rd, Kunming 650201, Yunnan, Peoples R China 5.Southwest Forestry Univ, State Forestry Adm, Key Lab Biodivers Conservat Southwest China, Kunming 650224, Yunnan, Peoples R China 6.Ningbo Bot Garden Herbarium, Ningbo 315201, Peoples R China 7.Chinese Acad Sci, Xishuangbanna Trop Bot Garden, Menglun 666303, Yunnan, Peoples R China 8.Egan, Ashley N.] Utah Valley Univ, Dept Biol, Orem, UT 84058 USA
推荐引用方式 GB/T 7714	Zhao,Yiyong,Zhang,Rong,Jiang,Kai-Wen,et al. Nuclear phylotranscriptomics and phylogenomics support numerous polyploidization events and hypotheses for the evolution of rhizobial nitrogen-fixing symbiosis in Fabaceae[J]. MOLECULAR PLANT,2021,14(5):748-773.
APA	Zhao,Yiyong.,Zhang,Rong.,Jiang,Kai-Wen.,Qi,Ji.,Hu,Yi.,...&Ma,Hong.(2021).Nuclear phylotranscriptomics and phylogenomics support numerous polyploidization events and hypotheses for the evolution of rhizobial nitrogen-fixing symbiosis in Fabaceae.MOLECULAR PLANT,14(5),748-773.
MLA	Zhao,Yiyong,et al."Nuclear phylotranscriptomics and phylogenomics support numerous polyploidization events and hypotheses for the evolution of rhizobial nitrogen-fixing symbiosis in Fabaceae".MOLECULAR PLANT 14.5(2021):748-773.