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DOI10.1073/pnas.1721395115
Comparative genomics of the nonlegume Parasponia reveals insights into evolution of nitrogen-fixing rhizobium symbioses
van Velzen R.; Holmer R.; Bu F.; Rutten L.; van Zeijl A.; Liu W.; Santuari L.; Cao Q.; Sharma T.; Shen D.; Roswanjaya Y.; Wardhani T.A.K.; Kalhor M.S.; Jansen J.; Johan V.D.H.; Güngör B.; Hartog M.; Hontelez J.; Verver J.; Yang W.-C.; Schijlen E.; Repin R.; Schilthuizen M.; Schranz M.E.; Heidstra R.; Miyata K.; Fedorova E.; Kohlen W.; Bisseling T.; Smit S.; Geurts R.
发表日期2018
ISSN0027-8424
起始页码E4700
结束页码E4709
卷号115期号:20
英文摘要Nodules harboring nitrogen-fixing rhizobia are a well-known trait of legumes, but nodules also occur in other plant lineages, with rhizobia or the actinomycete Frankia as microsymbiont. It is generally assumed that nodulation evolved independently multiple times. However, molecular-genetic support for this hypothesis is lacking, as the genetic changes underlying nodule evolution remain elusive. We conducted genetic and comparative genomics studies by using Parasponia species (Cannabaceae), the only nonlegumes that can establish nitrogen-fixing nodules with rhizobium. Intergeneric crosses between Parasponia andersonii and its nonnodulating relative Trema tomentosa demonstrated that nodule organogenesis, but not intracellular infection, is a dominant genetic trait. Comparative transcriptomics of P. andersonii and the legume Medicago truncatula revealed utilization of at least 290 orthologous symbiosis genes in nodules. Among these are key genes that, in legumes, are essential for nodulation, including NODULE INCEPTION (NIN) and RHIZOBIUM-DIRECTED POLAR GROWTH (RPG). Comparative analysis of genomes from three Parasponia species and related nonnodulating plant species show evidence of parallel loss in nonnodulating species of putative orthologs of NIN, RPG, and NOD FACTOR PERCEPTION. Parallel loss of these symbiosis genes indicates that these nonnodulating lineages lost the potential to nodulate. Taken together, our results challenge the view that nodulation evolved in parallel and raises the possibility that nodulation originated ∼100 Mya in a common ancestor of all nodulating plant species, but was subsequently lost in many descendant lineages. This will have profound implications for translational approaches aimed at engineering nitrogen-fixing nodules in crop plants. © 2018 National Academy of Sciences. All rights reserved.
英文关键词Biological nitrogen fixation; Comparative genomics; Copy number variation; Evolution; Symbiosis
语种英语
scopus关键词Article; barrel medic; Cannabaceae; comparative study; controlled study; copy number variation; gene expression; gene loss; genetic trait; genomics; intergeneric hybridization; molecular genetics; NIN gene; nitrogen fixation; NOD gene; nodulation; nonhuman; organogenesis; orthology; Parasponia andersonii; plant evolution; plant gene; plant genome; priority journal; Rhizobium; RPG gene; species comparison; symbiosis; transcriptomics; Trema; Trema tomentosa; amino acid sequence; evolution; Fabaceae; genetics; genomics; metabolism; microbiology; phenotype; phylogeny; physiology; procedures; Rhizobium; sequence homology; nitrogen; plant protein; Amino Acid Sequence; Biological Evolution; Fabaceae; Genomics; Nitrogen; Nitrogen Fixation; Phenotype; Phylogeny; Plant Proteins; Plant Root Nodulation; Rhizobium; Root Nodules, Plant; Sequence Homology; Symbiosis
来源期刊Proceedings of the National Academy of Sciences of the United States of America
文献类型期刊论文
条目标识符http://gcip.llas.ac.cn/handle/2XKMVOVA/160519
作者单位van Velzen, R., Laboratory of Molecular Biology, Department of Plant Sciences, Wageningen University, Wageningen, 6708 PB, Netherlands; Holmer, R., Laboratory of Molecular Biology, Department of Plant Sciences, Wageningen University, Wageningen, 6708 PB, Netherlands, Bioinformatics Group, Department of Plant Sciences, Wageningen University, Wageningen, 6708 PB, Netherlands; Bu, F., Laboratory of Molecular Biology, Department of Plant Sciences, Wageningen University, Wageningen, 6708 PB, Netherlands; Rutten, L., Laboratory of Molecular Biology, Department of Plant Sciences, Wageningen University, Wageningen, 6708 PB, Netherlands; van Zeijl, A., Laboratory of Molecular Biology, Department of Plant Sciences, Wageningen University, Wageningen, 6708 PB, Netherlands; Liu, W., Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China; Santuari, L., Laboratory of Molecular Biology, Department of Plant Sciences, Wageningen University, Wageningen, 6708 PB, Netherlands; Cao...
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van Velzen R.,Holmer R.,Bu F.,et al. Comparative genomics of the nonlegume Parasponia reveals insights into evolution of nitrogen-fixing rhizobium symbioses[J],2018,115(20).
APA van Velzen R..,Holmer R..,Bu F..,Rutten L..,van Zeijl A..,...&Geurts R..(2018).Comparative genomics of the nonlegume Parasponia reveals insights into evolution of nitrogen-fixing rhizobium symbioses.Proceedings of the National Academy of Sciences of the United States of America,115(20).
MLA van Velzen R.,et al."Comparative genomics of the nonlegume Parasponia reveals insights into evolution of nitrogen-fixing rhizobium symbioses".Proceedings of the National Academy of Sciences of the United States of America 115.20(2018).
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