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Duplication and sub-functionalization of flavonoid biosynthesis genes plays important role in Leguminosae root nodule symbiosis evolution

文献类型： 外文期刊

作者： Liu, Tengfei 1 ; Liu, Haiyue 2 ; Xian, Wenfei 4 ; Liu, Zhi 1 ; Yuan, Yaqin 1 ; Fan, Jingwei 1 ; Xiang, Shuaiying 1 ; Yang, Xia 1 ; Liu, Yucheng 1 ; Liu, Shulin 1 ; Zhang, Min 1 ; Shen, Yanting 1 ; Jiao, Yuannian 2 ; Cheng, Shifeng 4 ; Doyle, Jeff J. 8 ; Xie, Fang 2 ; Li, Jiayang 2 ; Tian, Zhixi 1 ;

作者机构： 1.Chinese Acad Sci, Inst Genet & Dev Biol, Key Lab Seed Innovat, Beijing 100101, Peoples R China

2.Univ Chinese Acad Sci, Beijing 100049, Peoples R China

3.Chinese Acad Sci, Shanghai Inst Plant Physiol & Ecol, CAS Ctr Excellence Mol Plant Sci, Key Lab Plant Carbon Capture, Shanghai 200032, Peoples R China

4.Chinese Acad Agr Sci, Agr Genom Inst Shenzhen, Shenzhen Branch, Minist Agr,Guangdong Lab Lingnan Modern Agr,Genome, Shenzhen 518124, Peoples R China

5.Max Planck Inst Biol Tubingen, Dept Mol Biol, D-72076 Tubingen, Germany

6.Hebei Acad Agr & Forestry Sci, Inst Cereal & Oil Crops, Hebei Key Lab Crop Genet & Breeding, Shijiazhuang 050035, Peoples R China

7.Chinese Acad Sci, Inst Bot, State Key Lab Plant Divers & Specialty Crops, Beijing 100093, Peoples R China

8.Cornell Univ, Sch Integrat Plant Sci, Sect Plant Breeding & Genet, Ithaca, NY 14853 USA

9.Chinese Acad Sci, State Key Lab Plant Genom, Beijing 100101, Peoples R China

10.Chinese Acad Sci, Inst Genet & Dev Biol, Natl Ctr Plant Gene Res, Beijing 100101, Peoples R China

11.Yazhouwan Natl Lab, Sanya 572024, Peoples R China

关键词： CHI1; duplication; gene gain; Leguminosae; root nodule symbiosis evolution; sub-functionalization

期刊名称：JOURNAL OF INTEGRATIVE PLANT BIOLOGY （ 影响因子：9.3； 五年影响因子：9.3 ）

ISSN： 1672-9072

年卷期： 2024 年

页码：

收录情况： SCI

摘要： Gene innovation plays an essential role in trait evolution. Rhizobial symbioses, the most important N-2-fixing agent in agricultural systems that exists mainly in Leguminosae, is one of the most attractive evolution events. However, the gene innovations underlying Leguminosae root nodule symbiosis (RNS) remain largely unknown. Here, we investigated the gene gain event in Leguminosae RNS evolution through comprehensive phylogenomic analyses. We revealed that Leguminosae-gain genes were acquired by gene duplication and underwent a strong purifying selection. Kyoto Encyclopedia of Genes and Genomes analyses showed that the innovated genes were enriched in flavonoid biosynthesis pathways, particular downstream of chalcone synthase (CHS). Among them, Leguminosae-gain type. chalcone isomerase (CHI) could be further divided into CHI1A and CHI1B clades, which resulted from the products of tandem duplication. Furthermore, the duplicated CHI genes exhibited exon-intron structural divergences evolved through exon/intron gain/loss and insertion/deletion. Knocking down CHI1B significantly reduced nodulation in Glycine max (soybean) and Medicago truncatula; whereas, knocking down its duplication gene CHI1A had no effect on nodulation. Therefore, Leguminosae-gain type. CHI participated in RNS and the duplicated CHI1A and CHI1B genes exhibited RNS functional divergence. This study provides functional insights into Leguminosae-gain genetic innovation and sub-functionalization after gene duplication that contribute to the evolution and adaptation of RNS in Leguminosae.

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