|Table of Contents|

Research Progress on the Integration of Metabolomics and Transcriptomics in the Metabolism of Medicinal Plants

《北方园艺》[ISSN:1001-0009/CN:23-1247/S]

Issue:
2025年8
Page:
136-142
Research Field:
Publishing date:

Info

Title:
Research Progress on the Integration of Metabolomics and Transcriptomics in the Metabolism of Medicinal Plants
Author(s):
LIU Caixia; SUN Nini; ZHAO Yimeng; SUO Xiaoxiong; DU Chenhui; PEI Xiangping
(College of Chinese Materia Medica and Food Engineering,Shanxi University of Chinese Medicine,Jinzhong,Shanxi 030619)
Keywords:
medicinal plants; metabolomics; transcriptomics; metabolism; genes
PACS:
S 567
DOI:
10.11937/bfyy.20244469
Abstract:
Through literature review,the research progress in the past decade on the joint analysis of metabolomics and transcriptomics in various aspects of medicinal plants were summarized,including germplasm research,variety identification,determination of harvest time,and stress response under adverse conditions,in order to comprehensively analyze the metabolic regulation mechanisms of medicinal plants,identify key genes involved in the synthesis of metabolites,and provide references for understanding the metabolic pathways and quality formation mechanisms of medicinal plants.

References:

［1］ZAYNAB M,FATIMA M,SHARIF Y,et al.Role of primary metabolites in plant defense against pathogens［J］.Microbial Pathogenesis,2019,137:103728.［2］朱三明,郑敏敏,田恬,等.植物次生代谢途径与调控研究进展［J］.植物生理学报,2023,59(12):2188-2216.［3］AHARONI A,GALILI G.Metabolic engineering of the plant primary-secondary metabolism interface［J］.Current Opinion in Biotechnology,2011,22(2):239-244.［4］MUSILOVA L,RIDL J,POLIVKOVA M,et al.Effects of secondary plant metabolites on microbial populations:Changes in community structure and metabolic activity in contaminated environments［J］.International Journal of Molecular Sciences,2016,17(8):1205.［5］JIA K P,DICKINSON A J,MI J,et al.Anchorene is a carotenoid-derived regulatory metabolite required for anchor root formation in Arabidopsis［J］.Science Advances,2019,5(11):6787.［6］WANG S,ALSEEKH S,FERNIE A R,et al.The structure and function of major plant metabolite modifications［J］.Molecular Plant,2019,12(7):899-919.［7］ERB M,KLIEBENSTEIN D J.Plant secondary metabolites as defenses,regulators,and primary metabolites:The blurred functional trichotomy［J］.Plant Physiology,2020,184(1):39-52.［8］FRAGA-CORRAL M,CARPENA M,GARCIA-OLIVEIRA P,et al.Analytical metabolomics and applications in health,environmental and food science［J］.Critical Reviews in Analytical Chemistry,2022,52(4):712-734.［9］LI-BEISSON Y,HIRAI M Y,NAKAMURA Y.Plant metabolomics［J］.Journal of Experimental Botany,2024,75(6):1651-1653.［10］蒋费涛,王书平,祁俊生,等.转录组学技术及其在植物系统学上的研究进展［J］.现代盐化工,2020,47(4):14-17.［11］ARICK M,HSU C Y.Differential gene expression analysis of plants［J］.Methods in Molecular Biology,2018,1783:279-298.［12］刘云翔,王亚鹏,康利平,等.基于传统品质评价的野生与栽培北柴胡比较［J］.中国实验方剂学杂志,2024,30(14):145-155.［13］杨小催,郭凯欣,李燕芳,等.基于指纹图谱结合化学计量学评价栽培与野生五指毛桃质量［J］.中国药业,2023,32(19):63-69.［14］WU M,GUO H,ZHAO M,et al.DNA barcoding identification of grafted Semen Ziziphi Spinosae and transcriptome study of wild Semen Ziziphi Spinosae［J］.PLoS One,2023,18(12):e0294944.［15］杨灏,佐々木陽平,练从龙,等.野生和栽培地黄特异性PCR鉴别方法研究［J］.中华中医药杂志,2023,38(5):2098-2103.［16］NKOBOLE N,PRINSLOO G.1H-NMR and LC-MS based metabolomics analysis of wild and cultivated Amaranthus spp［J］.Molecules,2021,26(4):795.［17］ZHANG J,WANG N,CHEN W,et al.Integrated metabolomics and transcriptomics reveal metabolites difference between wild and cultivated Ophiocordyceps sinensis［J］.Food Research International,2023,163:112275.［18］SU W,ZHU C,FAN Z,et al.Comprehensive metabolome and transcriptome analyses demonstrate divergent anthocyanin and carotenoid accumulation in fruits of wild and cultivated loquats［J］.Frontiers in Plant Science,2023,14:1285456.［19］ZHANG F,ZHANG X,LUO Y,et al.Biosynthetic mechanisms of isoflavone accumulation affected by different growth patterns in Astragalus mongholicus products［J］.BMC Plant Biology,2022,22(1):410.［20］CHEN L,ZHANG S,WANG Y,et al.Integrative analysis of transcriptome and metabolome reveals the sesquiterpenoids and polyacetylenes biosynthesis regulation in Atractylodes lancea (Thunb.) DC［J］.International Journal of Biological Macromolecules,2023,253:127044.［21］LI D,ONO N,SATO T,et al.Targeted integration of RNA-seq and metabolite data to elucidate curcuminoid biosynthesis in four Curcuma species［J］.Plant & Cell Physiology,2015,56(5):843-851.［22］NEMATI Z,KAZEMI-SHAHANDASHTI S S,GARIBAY-HERNNDEZ A,et al.Metabolomic and transcriptomic analyses of yellow-flowered crocuses to infer alternative sources of saffron metabolites［J］.BMC Plant Biology,2024,24(1):369.［23］彭璐,吴卫刚,范荫荫,等.基于近红外光谱分析技术的菊花品种识别及3种质量标志物含量快速测定［J］.时珍国医国药,2024,35(4):898-901.［24］张心怡,邱雨轩,胡杨,等.中药辛夷及其近缘种的DNA条形码分子鉴定［J］.南京中医药大学学报,2023,39(11):1086-1094.［25］石达理,王孟虎,陈思有,等.基于ITS2序列多种龙胆属植物及药材的DNA条形码鉴定研究［J］.中药材,2018,41(1):79-83.［26］张小艺.市场主流藁本类药材的差异性评价及谱效关系研究［D］.北京:北京协和医学院,2020.［27］ZENG X,LI J,CHEN T,et al.Global metabolic profile and multiple phytometabolites in the different varieties of Gastrodia elata Blume［J］.Frontiers in Plant Science,2023,14:1249456.［28］ZHEN G,ZHANG L,DU Y,et al.De novo assembly and comparative analysis of root transcriptomes from different varieties of Panax ginseng C.A.Meyer grown in different environments［J］.Science China.Life Sciences,2015,58(11):1099-1110.［29］ZHU T,ZHANG M,SU H,et al.Integrated metabolomic and transcriptomic analysis reveals differential mechanism of flavonoid biosynthesis in two cultivars of Angelica sinensis［J］.Molecules,2022,27(1):306.［30］LEE Y S,PARK H S,LEE D K,et al.Integrated transcriptomic and metabolomic analysis of five Panax ginseng cultivars reveals the dynamics of ginsenoside biosynthesis［J］.Frontiers in Plant Science,2017,8:1048.［31］CHEN L,DUAN S,HUANG J,et al.Integrated metabolomic and transcriptomic analysis reveals variation in the metabolites of Dendrobium officinale,Dendrobium huoshanense,Dendrobium nobile［J］.Phytochemical Analysis,2025,36(1):181-193.［32］ZHENG Y,XIA P,CHAI W,et al.Accumulation dynamics of elements in Panax notoginseng during its whole growing seasons［J］.Industrial Crops and Products,2020,158:113023.［33］王杰敏,郭浩川,赵梦薇,等.不同采收期辛夷挥发油GC-MS分析及其抗氧化、抗菌活性［J］.药物分析杂志,2024,44(9):1475-1484.［34］YUAN Y,ZUO J,ZHANG H,et al.Transcriptome and metabolome profiling unveil the accumulation of flavonoids in Dendrobium officinale［J］.Genomics,2022,114(3):110324.［35］MIN X,ZHU T,HU X,et al.Transcriptome and metabolome analysis of isoquinoline alkaloid biosynthesis of Coptis chinensis in different years［J］.Genes,2023,14(12):2232.［36］DUAN Y,WU J,WANG F,et al.Transcriptomic and metabolomic analyses provide new insights into the appropriate harvest period in regenerated bulbs of Fritillaria hupehensis［J］.Frontiers in Plant Science,2023,14:1132936.［37］刘德帅,袁苗,冯美,等.不同采收期宁夏枸杞果实品质差异及抗氧化特性分析［J］.植物生理学报,2024,60(5):837-849.［38］李若诗,丁海燕,杜华,等.基于全谱非靶向代谢组学技术的川芎不同部位代谢物深度解析［J］.核农学报,2024,38(2):243-258.［39］秦伟瀚,花雷,郭延垒,等.UPLC-Q-TOF-MS结合代谢组学分析冬虫夏草不同部位的差异性［J］.中国实验方剂学杂志,2018,24(21):69-76.［40］XING F,XIAO Q,GUL H,et al.Comparative global profiling of Perilla leaf and stem via transcriptomics and metabolomics［J］.Gene,2024,929:148828.［41］吴迪,张燕燕,林楠,等.基于转录组学和代谢组学联合分析草珊瑚萜类化合物生物合成的组织特异性分布［J］.生物工程学报,2024,40(2):542-561.［42］MO X,WANG L,YU C,et al.Combined metabolomics and transcriptomics analysis of the distribution of flavonoids in the fibrous root and taproot of Polygonatum kingianum coll.et hemsl［J］.Genes,2024,15(7):828.［43］GU L,ZHANG Z Y,QUAN H,et al.Integrated analysis of transcriptomic and metabolomic data reveals critical metabolic pathways involved in rotenoid biosynthesis in the medicinal plant Mirabilis himalaica［J］.Molecular Genetics and Genomics,2018,293(3):635-647.［44］YU K,PENG L,LIANG W,et al.Integrative metabolome and transcriptome analyses reveal the differences in flavonoid and terpenoid synthesis between Glycyrrhiza uralensis (licorice) leaves and roots［J］.Food Science and Biotechnology,2023,33(1):91-101.［45］SHINOZAKI K,YAMAGUCHI-SHINOZAKI K.Gene networks involved in drought stress response and tolerance［J］.Journal of Experimental Botany,2007,58(2):221-227.［46］GARGALLO-GARRIGA A,SARDANS J,PREZ-TRUJILLO M,et al.Warming differentially influences the effects of drought on stoichiometry and metabolomics in shoots and roots［J］.New Phytologist,2015,207(3):591-603.［47］戴昂勤,邓煜,马正政,等.基于代谢组学分析有机肥对蒙古黄芪生长发育的影响［J］.北方园艺,2024(16):116-124.［48］KATAM R,LIN C,GRANT K,et al.Advances in plant metabolomics and its applications in stress and single-cell biology［J］.International Journal of Molecular Sciences,2022,23(13):6985.［49］SU Y,JIAO M,GUAN H,et al.Comparative transcriptome analysis of Saposhnikovia divaricata to reveal drought and rehydration adaption strategies［J］.Molecular Biology Reports,2023,50(4):3493-3502.［50］ZHANG Y,LI Y,CHEN X,et al.Combined metabolome and transcriptome analyses reveal the effects of mycorrhizal fungus Ceratobasidium sp.AR2 on the flavonoid accumulation in Anoectochilus roxburghii during different growth stages［J］.International Journal of Molecular Sciences,2020,21(2):564.［51］SUN T,SUN J,LIU Y,et al.Metabolome and transcriptome analyses provide new insights into the mechanisms underlying the enhancement of medicinal component content in the roots of Acanthopanax senticosus (Rupr.et Maxim.) Harms through foliar application of zinc fertilizer［J］.Frontiers in Genetics,2023(14):1259674.［52］ZHANG S,HE C,WEI L,et al.Transcriptome and metabolome analysis reveals key genes and secondary metabolites of Casuarina equisetifolia ssp.incana in response to drought stress［J］.BMC Plant Biology,2023,23(1):200.［53］周春艳,狄永国,仇全雷,等.转录组和代谢组联合分析低温胁迫对天麻生长发育的影响［J］.分子植物育种,2023,21(1):110-122.

Memo

Memo:
-
Last Update: 2025-05-12