Integrating genomic and multiomic data for Angelica sinensis provides insights into the evolution and biosynthesis of pharmaceutically bioactive compounds

Angelica sinensis roots (Angelica roots) are rich in many bioactive compounds, including phthalides, coumarins, lignans, and terpenoids. However, the molecular bases for their biosynthesis are still poorly understood. Here, an improved chromosome-scale genome for A. sinensis var. Qinggui1 is reporte...

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Published in:Communications biology Vol. 6; no. 1; pp. 1198 - 20
Main Authors: Li, Shiming, Chiu, Tsan-Yu, Jin, Xin, Cao, Dong, Xu, Meng, Zhu, Mingzhi, Zhou, Qi, Liu, Chun, Zong, Yuan, Wang, Shujie, Yu, Kang, Zhang, Feng, Bai, Mingzhou, Liu, Guangrui, Liang, Yunlong, Zhang, Chi, Simonsen, Henrik Toft, Zhao, Jian, Liu, Baolong, Zhao, Shancen
Format: Journal Article
Language:English
Published: London Nature Publishing Group UK 24.11.2023
Nature Publishing Group
Nature Portfolio
Subjects:
38/39
38/77
45/23
45/91
631/208/191
631/449/2667
Angelica sinensis
Angelica sinensis - genetics
Bioactive compounds
Biochemistry, Molecular Biology
Biology
Biomedical and Life Sciences
Biosynthesis
Chromosomes
Evolutionary genetics
Flowering
Gene Expression Profiling
Gene regulation
Genomes
Genomics
Life Sciences
Metabolism
Metabolites
Metabolomics
Multiomics
Roots
Secondary Metabolism
Transcriptomes
Transcriptomics
Volatiles
ISSN:2399-3642, 2399-3642
Online Access:Get full text
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Summary:Angelica sinensis roots (Angelica roots) are rich in many bioactive compounds, including phthalides, coumarins, lignans, and terpenoids. However, the molecular bases for their biosynthesis are still poorly understood. Here, an improved chromosome-scale genome for A. sinensis var. Qinggui1 is reported, with a size of 2.16 Gb, contig N50 of 4.96 Mb and scaffold N50 of 198.27 Mb, covering 99.8% of the estimated genome. Additionally, by integrating genome sequencing, metabolomic profiling, and transcriptome analysis of normally growing and early-flowering Angelica roots that exhibit dramatically different metabolite profiles, the pathways and critical metabolic genes for the biosynthesis of these major bioactive components in Angelica roots have been deciphered. Multiomic analyses have also revealed the evolution and regulation of key metabolic genes for the biosynthesis of pharmaceutically bioactive components; in particular, TPSs for terpenoid volatiles, ACCs for malonyl CoA, PKSs for phthalide, and PTs for coumarin biosynthesis were expanded in the A. sinensis genome. These findings provide new insights into the biosynthesis of pharmaceutically important compounds in Angelica roots for exploration of synthetic biology and genetic improvement of herbal quality. A chromosome-level genome assembly for Angelica sinensis var. Qinggui1 combined with metabolomic and transcriptomic analyses provides insight into the pathways involved in the biosynthesis of pharmaceutically important compounds in roots of this plant.
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ISSN:2399-3642
2399-3642
DOI:10.1038/s42003-023-05569-5