Xinxin Zhong , Tingyu Shan , Jingjing Zhang , Jinshibo Fan , Zhiwei Wang , Yijia Tao , Jiawen Wu
{"title":"Transcriptomic analysis reveals candidate genes for phenolic acid biosynthesis in Polygonum chinense L.","authors":"Xinxin Zhong , Tingyu Shan , Jingjing Zhang , Jinshibo Fan , Zhiwei Wang , Yijia Tao , Jiawen Wu","doi":"10.1016/j.jarmap.2024.100552","DOIUrl":null,"url":null,"abstract":"<div><p><em>Polygonum chinense</em> L. (synonym: <em>Persicaria chinensis</em>) 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 <em>P. chinense</em> 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 <em>P. chinense</em>, 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 <em>P. chinense</em> as a food-medicine dual-purpose plant.</p></div>","PeriodicalId":15136,"journal":{"name":"Journal of Applied Research on Medicinal and Aromatic Plants","volume":null,"pages":null},"PeriodicalIF":3.8000,"publicationDate":"2024-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Applied Research on Medicinal and Aromatic Plants","FirstCategoryId":"97","ListUrlMain":"https://www.sciencedirect.com/science/article/pii/S2214786124000251","RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"PLANT SCIENCES","Score":null,"Total":0}
引用次数: 0
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.
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.