About: Biosynthesis of the active compounds of Isatis indigotica based on transcriptome sequencing and metabolites profiling

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About: Biosynthesis of the active compounds of Isatis indigotica based on transcriptome sequencing and metabolites profiling Goto Sponge NotDistinct Permalink

An Entity of Type : schema:ScholarlyArticle, within Data Space : covidontheweb.inria.fr associated with source document(s)

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Biosynthesis of the active compounds of Isatis indigotica based on transcriptome sequencing and metabolites profiling
Creator	Li, Qing Chen, Junfeng Zhang, Lei Chen, Ruibing Chen, Wansheng Dong, Xin Gao, Shouhong Sun, Lianna Zhou, Xun
Source	Medline; PMC
abstract	BACKGROUD: Isatis indigotica is a widely used herb for the clinical treatment of colds, fever, and influenza in Traditional Chinese Medicine (TCM). Various structural classes of compounds have been identified as effective ingredients. However, little is known at genetics level about these active metabolites. In the present study, we performed de novo transcriptome sequencing for the first time to produce a comprehensive dataset of I. indigotica. RESULTS: A database of 36,367 unigenes (average length = 1,115.67 bases) was generated by performing transcriptome sequencing. Based on the gene annotation of the transcriptome, 104 unigenes were identified covering most of the catalytic steps in the general biosynthetic pathways of indole, terpenoid, and phenylpropanoid. Subsequently, the organ-specific expression patterns of the genes involved in these pathways, and their responses to methyl jasmonate (MeJA) induction, were investigated. Metabolites profile of effective phenylpropanoid showed accumulation pattern of secondary metabolites were mostly correlated with the transcription of their biosynthetic genes. According to the analysis of UDP-dependent glycosyltransferases (UGT) family, several flavonoids were indicated to exist in I. indigotica and further identified by metabolic profile using UPLC/Q-TOF. Moreover, applying transcriptome co-expression analysis, nine new, putative UGTs were suggested as flavonol glycosyltransferases and lignan glycosyltransferases. CONCLUSIONS: This database provides a pool of candidate genes involved in biosynthesis of effective metabolites in I. indigotica. Furthermore, the comprehensive analysis and characterization of the significant pathways are expected to give a better insight regarding the diversity of chemical composition, synthetic characteristics, and the regulatory mechanism which operate in this medical herb.
has issue date	2013-12-05(xsd:dateTime)
bibo:doi	10.1186/1471-2164-14-857
bibo:pmid	24308360
has license	cc-by
sha1sum (hex)	8dab25c25f6598446d3b229d821402278b2bc0b9
schema:url	https://doi.org/10.1186/1471-2164-14-857
resource representing a document's title	Biosynthesis of the active compounds of Isatis indigotica based on transcriptome sequencing and metabolites profiling
has PubMed Central identifier	PMC3890716
has PubMed identifier	24308360
schema:publication	BMC Genomics
resource representing a document's body	covid:8dab25c25f6598446d3b229d821402278b2bc0b9#body_text
is schema:about of	named entity 'influenza' named entity 'clinical treatment' named entity 'active' named entity 'transcriptome' named entity 'METABOLITES' named entity 'LITTLE' named entity 'THESE' named entity 'KNOWN' named entity 'LEVEL' named entity 'ACTIVE' named entity 'CLINICAL TREATMENT' named entity 'METABOLITES' named entity 'VARIOUS' named entity 'INFLUENZA' named entity 'TRANSCRIPTOME SEQUENCING' named entity 'BIOSYNTHESIS' named entity 'ACTIVE' named entity 'HAVE' named entity 'HERB' named entity 'BASED' named entity 'ISATIS INDIGOTICA' named entity 'TIME' named entity 'EFFECTIVE' named entity 'USED' named entity 'PERFORMED' named entity 'IS A' named entity 'GENETICS' named entity 'STUDY' named entity 'COLDS' named entity 'FEVER' named entity 'TRADITIONAL CHINESE MEDICINE' named entity 'CLASSES' named entity 'TO PRODUCE' named entity 'IDENTIFIED' named entity 'ABOUT' named entity 'DE NOVO' named entity 'STRUCTURAL' named entity 'DATASET' named entity 'COMPREHENSIVE' named entity 'PRESENT' named entity 'TRANSCRIPTOME SEQUENCING' named entity 'ISATIS INDIGOTICA' named entity 'study' named entity 'identified' named entity 'transcriptome' named entity 'Traditional Chinese Medicine' named entity 'transcriptome' named entity 'phenylpropanoids' named entity 'homologous' named entity 'homology' named entity 'UGTs' named entity 'lignan' named entity 'lignans' named entity 'indole alkaloids' named entity 'methanol' named entity 'ion' named entity 'flavonoids' named entity 'antiviral' named entity 'genome' named entity 'CAD' named entity 'MeJA' named entity 'expressed genes' named entity 'model plant' named entity 'MeJA' named entity 'autosampler' named entity 'cloning' named entity 'sonication' named entity 'co-expression' named entity 'freeze dried' named entity 'sequence data' named entity 'pajek' named entity 'transcription' named entity 'gene'

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