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Characterization of Transcriptome Expression: The Response ofIsatis indigoticato Salt Stress

文献类型： 外文期刊

作者： Tang, X-Q 1 ; Tan, H-W 1 ; Shi, S-L 1 ; Wang, L-L 1 ; Wang, F-Q 2 ; Wang, K-C 1 ; Yang, J. 2 ;

作者机构： 1.Nanjing Agr Univ, Coll Hort, Nanjing 210095, Peoples R China

2.Jiangsu Acad Agr Sci, Inst Food Crops, Nanjing 210014, Peoples R China

关键词： Isatis indigotica; de novo assembly; expression profile; RNA-seq; salt stress

期刊名称：RUSSIAN JOURNAL OF PLANT PHYSIOLOGY （ 影响因子：1.481； 五年影响因子：1.608 ）

ISSN： 1021-4437

年卷期： 2020 年 67 卷 6 期

页码：

收录情况： SCI

摘要： Isatis indigoticaFort. is extremely widely planted and used for the source of the traditional Chinese medicine Radix Isatidis (Ban-Lan-Gen), which had pharmacological activities such as anti-endotoxic, antibacterial, antinociceptive, anti-inflammatory and antipyretic. In the cultivation, salt stress could affect the yields of Radix Isatidis, and activate the secondary metabolism, eg. the contents of epigoitrin in root and indigo in leaf increased after a period of salt stress, which was possibly regulated by related genes. But in early salt stress, the molecular response ofI. indigoticaand expression of related genes are also worthy of our attention, which it helps us to more fully understand the molecular response mechanism ofI. indigotica, so that we can make better use of "salt stress" to stimulate its secondary metabolism. To determine the molecular changes ofI. indigoticain salt stress, the RNA-seq was carried out for the expression profile with NGS QC Toolkit (v2.3.2) software, the Illumina HiSeqTM 2000 in Biomarker Technologies Co., Ltd and ESTScan program. The de novo assembly resulted in 33109 unigenes from more than 18.71 Gb data. Of these, 28868 unigenes were annotated using KOG, KEGG, Nr, Nt, Swiss-Prot and TrEMBL databases. Then, 11829 simple sequence repeats were found in unigenes and 7725 primers were designed. After detecting the expression value, the edgeR package found 135 DEG, of those 48 were up-regulated and 87 were down-regulated. The expression pattern of genes that was validated by qPCR indicated that mitochondrial transcription termination factor, non-LTR retroelement reverse transcriptase and CYP79F1 which involved in the first step in biosynthesis of core short-chain aliphatic glucosinolates might play a vital role in coping with salt stress. Although one assembly ofI. indigoticaunigenes were obtained before, this study would provide more molecular data for further analysis, and facilitate studies on the functions of genes involved in the salt related signal pathways.

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