Haploid-Phased Chromosomal Telomere-to-Telomere Genome Assembly of Medicinal Plant Uncaria rhynchophylla Dissects Genetic Controls on the Biosynthesis of Bioactive Alkaloids
文献类型： 外文期刊
作者： Hu, Tao 1 ; Duan, Lei 2 ; Shangguan, Liyang 1 ; Zhao, Qingshi 1 ; Hang, Ye 1 ; Wang, Xiaohong 3 ; Li, Xue 4 ; Yang, Ningxian 5 ; Yan, Fulin 1 ; Lv, Qiuyu 1 ; Tang, Liu 1 ; Liu, Miao 1 ; Qiang, Wei 1 ; Wang, Xincun 6 ; Wang, Xuewen 7 ; Zhang, Mingsheng 1 ;
作者机构： 1.Guizhou Univ, Inst Agrobioengineering, Coll Life Sci, Key Lab Plant Resources Conservat & Germplasm Inno, Guiyang, Peoples R China
2.Duke Univ, Dept Civil & Environm Engn, Durham, NC USA
3.Guizhou Acad Agr Sci, Inst Sericulture Sci, Guiyang, Guizhou, Peoples R China
4.Guizhou Minzu Univ, Sch Chinese Ethn Med, Guiyang, Guizhou, Peoples R China
5.Guizhou Med Univ, Guizhou Prov Engn Res Ctr Ecol Food Innovat, Sch Publ Hlth, Key Lab Environm Pollut & Monitoring Dis Control,M, Guiyang, Peoples R China
6.Sinopharm Grp Tongjitang Guizhou Pharmaceut Co, Guiyang, Peoples R China
7.Univ North Texas, Hlth Sci Ctr, Ft Worth, TX 76107 USA
8.Univ Georgia, Dept Genet, Athens, GA 30602 USA
关键词： alkaloid; biosynthesis; evolution; gene duplication; genome assembly; stress; Uncaria rhynchophylla
期刊名称：PLANT CELL AND ENVIRONMENT （ 影响因子：6.3； 五年影响因子：7.7 ）
ISSN： 0140-7791
年卷期： 2025 年 48 卷 3 期
页码：
收录情况： SCI
摘要： Natural indole alkaloids provide important medicinal resources and defences to environmental stresses. The Uncaria genus is a recorded traditional medicinal woody plant with high alkaloids. Genomic insights into alkaloid variation remain elusive. Here, we have dissected the haploid-resolved chromosomal T2T genome assembly of Uncaria rhynchophylla with a size of similar to 634 Mb and contig N50 of 27 Mb using PacBio HiFi long-reads plus Hi-C reads and anchored the contigs on 22 pairs of confirmed chromosomes. This genome contains 56% repeat sequences and similar to 29 000 protein-encoding genes. U. rhynchophylla diverged from a common ancestor shared with Coffea around 20 million years ago and contains expanded and contracted gene families associated with secondary metabolites and defences/resistance to stresses. We constructed the pathway and mined genes for rhynchophylline alkaloid biosynthesis. Fifty-three alkaloids in this pathway and eight differentially expressed genes are the keys to alkaloid accumulation. Elevated alkaloid levels are driven by high copy numbers of critical genes STRs and SGRs involved in strictosidine synthesis and hydrolysis as evidenced by phylogenetic, expression and RNA interference analyses. These results advance our genetic understanding and guide further breeding improvements, stress adaptation studies and pharmaceutical development.
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