Decoding the chromatin accessibility in Andrographis paniculata genome,a case study of genome-wide investigation of the cis-regulatory elements in medicinal plants  

作　　者：Mingkun Huang Yufang Hu Ling Zhang Hua Yang Chen Feng Chunhong Jiang Ning Xie Difa Liu Shilin Chen Jihua Wang Wei Sun 

机构地区：[1]Jiangxi Provincial Key Laboratory of Ex Situ Plant Conservation and Utilization,Lushan Botanical Garden,Chinese Academy of Sciences,Jiujiang 332900,China [2]Key Laboratory of Beijing for Identification and Safety Evaluation of Chinese Medicine,China Academy of Chinese Medical Sciences,Institute of Chinese Materia Medic1,Beijing 100070,China [3]State Key Laboratory for Quality Ensurance and Sustainable Use of Dao-di Herbs,Institute of Chinese Materia Medic1,China Academy of Chinese Medical Sciences,Beijing 100700,China [4]Institute of Herbgenomics,Chengdu University of Traditional Chinese Medicine,Chengdu 611137,China [5]Guangdong Provincial Key Laboratory of Crops Genetics and Improvement,Crop Research Institute,Guangdong Academy of Agriculture Sciences,Guangzhou 510640,China [6]State Key Laboratory of Innovative Natural Medicine and TCM Injections,Jiangxi Qingfeng Pharmaceutical Co.Ltd.,Ganzhou 341008,China

出　　处：《Acta Pharmaceutica Sinica B》2024年第9期4179-4182,共4页药学学报（英文版）

基　　金：the National Natural Science Foundation of China(82260745);Jiangxi Provincial Natural Science Foundation(20232BAB216120,China);Jiangxi Province Major Discipline Academic and Technical Leaders Training Program‒Leading Talents Project(20225BCJ22018,China).

摘　　要：To the Editor:Medicinal plants have the ability to synthesize a large number of pharmaceutical metabolites,the production and regulation of which are influenced by both intrinsic signals(e.g.,the spatial and temporal stage)and extrinsic environmental conditions(e.g.,temperature,light availability,and water availability)^(1).According to the Encyclopedia of DNA Elements(ENCODE)project^(2),accessible chromatin regions(ACRs)served essential roles in maintaining the genome architecture and gene regulation in both mammals and plants.Nowadays,identifying ACRs within medicinal plant genomes remains a challenge,as genomic sequences have been determined for numerous species yet the characterization of such functional elements lags.In this study,we selected Andrographis paniculata(APA)^(3) as a model system to map ACRs genome-wide by the assay for transposase-accessible chromatin with sequencing(ATAC-seq)method.We aimed to uncover the genomic features of ACRs as well as their association with the expression of genes involved in secondary metabolite biosynthesis(e.g.,andrographolide)within medicinal plants(Supporting Information Fig.S1).

关 键 词：Andrographis paniculata Chromatin accessibility Medicinal plant EPIGENETICS ENCODE cis-regulatory elements 

分 类 号：Q943.2[生物学—植物学]