Transcriptomic analysis reveals candidate genes for phenolic acid biosynthesis in Polygonum chinense L.

IF 3.8 2区 农林科学 Q1 PLANT SCIENCES Journal of Applied Research on Medicinal and Aromatic Plants Pub Date : 2024-05-01 DOI:10.1016/j.jarmap.2024.100552
Xinxin Zhong , Tingyu Shan , Jingjing Zhang , Jinshibo Fan , Zhiwei Wang , Yijia Tao , Jiawen Wu
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Abstract

Polygonum chinense L. (synonym: Persicaria chinensis) was considered a medicinal food homology plant, which was often used in herbal tea. This plant is rich in phenolic acid compounds that possess antibacterial, antioxidant, and other pharmacological properties. Although phenolic acids of P. chinense have been investigated pharmacologically, the genetic basis of phenolic acid biosynthesis in this plant is unknown due to the lack of a reference genome. In this study, we employed a combination of transcriptomics and bioinformatic analysis to construct a transcriptome database for three tissues (flowers, leaves, and stems) of P. chinense, and extracted genes related to the biosynthesis of phenolic acids. In total, 90,635 unigenes with a mean length of 1224 bp were obtained, 70,915 of which were functionally annotated. Seventy-eight differentially expressed genes (DEGs) associated with the phenolic acid biosynthetic pathway were identified, with five DEGs (CL4812–1, CL7291–1, CL5600–1, CL6332–3, and Unigene12384) being singled out as candidate genes putatively involved in the regulation of phenolic acid biosynthesis through correlation analysis. A comprehensive sequence analysis of these candidate genes was subsequently performed. The phylogenetic tree and the structural model were constructed, and molecular docking studies were conducted for the 4-coumarate-CoA ligase. Additionally, the expression levels of 12 unigenes encoding key enzymes involved in phenolic acid biosynthesis were validated using quantitative reverse transcription-PCR. Our study provides candidate genes at the transcriptional level for further investigation of the molecular regulatory mechanisms involved in phenolic acid biosynthesis, as well as a scientific basis for the development of P. chinense as a food-medicine dual-purpose plant.

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转录组分析揭示了蓼属植物酚酸生物合成的候选基因
何首乌被认为是一种药食同源植物,常用于制作凉茶。这种植物富含酚酸化合物,具有抗菌、抗氧化和其他药理特性。虽然人们已经对秦艽的酚酸进行了药理研究,但由于缺乏参考基因组,人们对该植物酚酸生物合成的遗传基础尚不清楚。在本研究中,我们结合转录组学和生物信息学分析,构建了千层塔三种组织(花、叶和茎)的转录组数据库,并提取了与酚酸生物合成相关的基因。共获得 90,635 个平均长度为 1224 bp 的单基因,其中 70,915 个已进行功能注释。通过相关性分析,确定了 78 个与酚酸生物合成途径相关的差异表达基因(DEGs),其中 5 个 DEGs(CL4812-1、CL7291-1、CL5600-1、CL6332-3 和 Unigene12384)可能参与了酚酸生物合成的调控。随后对这些候选基因进行了全面的序列分析。构建了系统发生树和结构模型,并对 4-香豆酸-CoA连接酶进行了分子对接研究。此外,还利用定量反转录-PCR 验证了 12 个编码参与酚酸生物合成的关键酶的单基因的表达水平。我们的研究为进一步研究参与酚酸生物合成的分子调控机制提供了转录水平上的候选基因,同时也为将金针菜开发成食药两用植物提供了科学依据。
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来源期刊
Journal of Applied Research on Medicinal and Aromatic Plants
Journal of Applied Research on Medicinal and Aromatic Plants Pharmacology, Toxicology and Pharmaceutics-Drug Discovery
CiteScore
6.40
自引率
7.70%
发文量
80
审稿时长
41 days
期刊介绍: JARMAP is a peer reviewed and multidisciplinary communication platform, covering all aspects of the raw material supply chain of medicinal and aromatic plants. JARMAP aims to improve production of tailor made commodities by addressing the various requirements of manufacturers of herbal medicines, herbal teas, seasoning herbs, food and feed supplements and cosmetics. JARMAP covers research on genetic resources, breeding, wild-collection, domestication, propagation, cultivation, phytopathology and plant protection, mechanization, conservation, processing, quality assurance, analytics and economics. JARMAP publishes reviews, original research articles and short communications related to research.
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