Haplotype-resolved genome of Agastache rugosa (Huo Xiang) provides insight into monoterpenoid biosynthesis and gene cluster evolution

IF 8.7 1区农林科学 Q1 Agricultural and Biological Sciences

Horticulture Research Pub Date : 2025-02-01 DOI:10.1093/hr/uhaf034

Chanchan Liu, DiShuai Li, Jingjie Dang, Juan Shu, Samuel J Smit, QiNan Wu, Benjamin R Lichman

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Abstract

Monoterpenoids are small volatile molecules produced by many plants that have applications in consumer products and healthcare. Plants from the mint family (Lamiaceae) are prodigious producers of monoterpenoids, including a chemotype of Agastache rugosa (Huo Xiang), which produces pulegone and isomenthone. We sequenced, assembled and annotated a haplotype-resolved chromosome-scale genome assembly of A. rugosa with a monoterpene chemotype. This genome assembly revealed that pulegone biosynthesis genes are in a biosynthetic gene cluster, which shares a common origin with the pulegone gene cluster in Schizonepeta tenuifolia. Using phylogenetics and synteny analysis, we describe how the clusters in these two species diverged through inversions and duplications. Using Hi-C analysis, we identified tentative evidence of contact between the pulegone gene cluster and an array of pulegone reductases, with both regions also enriched in retrotransposons. This genome and its analysis add valuable and novel insights to the organization and evolution of terpenoid biosynthesis in Lamiaceae.

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藿香单倍型解析基因组为单萜类生物合成和基因簇进化提供了新的思路

单萜类化合物是由许多植物产生的小挥发性分子，在消费品和医疗保健中有应用。薄荷科植物是单萜类化合物的大量生产者，包括一种化学型的Agastache rugosa（霍香），它能产生pulegone和异薄荷酮。我们测序、组装并注释了具有单萜化学型的单倍型解决的rugosa染色体规模基因组组装。该基因组组装表明，pulegone生物合成基因位于一个生物合成基因簇中，该基因簇与荆芥（Schizonepeta tenuifolia）的pulegone基因簇同源。利用系统发育和共系分析，我们描述了这两个物种的集群如何通过倒置和重复而分化。利用Hi-C分析，我们初步确定了pulegone基因簇和一系列pulegone还原酶之间的接触证据，这两个区域也富含反转录转座子。该基因组及其分析为Lamiaceae萜类生物合成的组织和进化提供了有价值的新见解。

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来源期刊

Horticulture Research Biochemistry, Genetics and Molecular Biology-Biochemistry

CiteScore

11.20

自引率

6.90%

发文量

367

审稿时长

20 weeks

期刊介绍： Horticulture Research, an open access journal affiliated with Nanjing Agricultural University, has achieved the prestigious ranking of number one in the Horticulture category of the Journal Citation Reports ™ from Clarivate, 2022. As a leading publication in the field, the journal is dedicated to disseminating original research articles, comprehensive reviews, insightful perspectives, thought-provoking comments, and valuable correspondence articles and letters to the editor. Its scope encompasses all vital aspects of horticultural plants and disciplines, such as biotechnology, breeding, cellular and molecular biology, evolution, genetics, inter-species interactions, physiology, and the origination and domestication of crops.