Transcriptional data mining of Salvia miltiorrhiza in response to methyl jasmonate to examine the mechanism of bioactive compound biosynthesis and regulation

Hongmei Luo, Yingjie Zhu, Jingyuan Song, Lijia Xu, Chao Sun, Xin Zhang, Yanhong Xu, Liu He, Wei Sun, Haibin Xu, Bo Wang, Xian'en Li, Chuyuan Li, Juyan Liu, Shilin Chen

Research output: Contribution to journalArticle

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Abstract

Salvia miltiorrhiza is a Chinese herb with significant pharmacologic effects because of the bioactive compounds of tanshinones and phenolic acids. Methyl jasmonate (MeJA) has been used as an effective elicitor to enhance the production of these compounds. However, the molecular mechanism of MeJA-mediated tanshinone and salvianolic acid biosynthesis remains unclear. The transcriptional profiles of S. miltiorrhiza leaves at 12 h (T12) after MeJA elicitation and mock-treated leaves (T0) were generated using the Illumina deep RNA sequencing (RNA-seq) strategy to detect the changes in gene expression in response to MeJA. In total, 37 647 unique sequences were obtained from about 21 million reads, and 25 641 (71.53%) of these sequences were annotated based on the BLAST searches against the public databases. A total of 5287 unique sequences were expressed differentially between the samples of T0 and T12, which covered almost all the known genes involved in tanshinone and phenolic acid biosynthesis in S. miltiorrhiza. Many of the transcription factors (e.g. MYB, bHLH and WRKY) and genes involved in plant hormone biosynthesis and signal transduction were expressed differentially in response to the MeJA induction. Importantly, three and four candidate cytochrome P450s (P450s) that could be involved in the tanshinone and phenolic acid biosynthesis, respectively, were selected from the RNA-seq data based on co-expressed pattern analysis with SmCPS1/SmKSL1 and SmRAS, which are the key genes responsible for biosynthesis. This comprehensive investigation of MeJA-induced gene expression profiles can shed light on the molecular mechanisms of the MeJA-mediated bioactive compound biosynthesis and regulation in S. miltiorrhiza.

Original languageEnglish (US)
Pages (from-to)241-255
Number of pages15
JournalPhysiologia Plantarum
Volume152
Issue number2
DOIs
StatePublished - Jan 1 2014
Externally publishedYes

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Salvia miltiorrhiza
Data Mining
methyl jasmonate
biosynthesis
phenolic acids
RNA Sequence Analysis
sequence analysis
salvianolic acid
Genes
High-Throughput Nucleotide Sequencing
gene expression
Plant Growth Regulators
genes
Cytochromes
cytochromes
bioactive compounds
Transcriptome
plant hormones
signal transduction
leaves

ASJC Scopus subject areas

  • Physiology
  • Genetics
  • Plant Science
  • Cell Biology

Cite this

Transcriptional data mining of Salvia miltiorrhiza in response to methyl jasmonate to examine the mechanism of bioactive compound biosynthesis and regulation. / Luo, Hongmei; Zhu, Yingjie; Song, Jingyuan; Xu, Lijia; Sun, Chao; Zhang, Xin; Xu, Yanhong; He, Liu; Sun, Wei; Xu, Haibin; Wang, Bo; Li, Xian'en; Li, Chuyuan; Liu, Juyan; Chen, Shilin.

In: Physiologia Plantarum, Vol. 152, No. 2, 01.01.2014, p. 241-255.

Research output: Contribution to journalArticle

Luo, H, Zhu, Y, Song, J, Xu, L, Sun, C, Zhang, X, Xu, Y, He, L, Sun, W, Xu, H, Wang, B, Li, X, Li, C, Liu, J & Chen, S 2014, 'Transcriptional data mining of Salvia miltiorrhiza in response to methyl jasmonate to examine the mechanism of bioactive compound biosynthesis and regulation', Physiologia Plantarum, vol. 152, no. 2, pp. 241-255. https://doi.org/10.1111/ppl.12193
Luo, Hongmei ; Zhu, Yingjie ; Song, Jingyuan ; Xu, Lijia ; Sun, Chao ; Zhang, Xin ; Xu, Yanhong ; He, Liu ; Sun, Wei ; Xu, Haibin ; Wang, Bo ; Li, Xian'en ; Li, Chuyuan ; Liu, Juyan ; Chen, Shilin. / Transcriptional data mining of Salvia miltiorrhiza in response to methyl jasmonate to examine the mechanism of bioactive compound biosynthesis and regulation. In: Physiologia Plantarum. 2014 ; Vol. 152, No. 2. pp. 241-255.
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abstract = "Salvia miltiorrhiza is a Chinese herb with significant pharmacologic effects because of the bioactive compounds of tanshinones and phenolic acids. Methyl jasmonate (MeJA) has been used as an effective elicitor to enhance the production of these compounds. However, the molecular mechanism of MeJA-mediated tanshinone and salvianolic acid biosynthesis remains unclear. The transcriptional profiles of S. miltiorrhiza leaves at 12 h (T12) after MeJA elicitation and mock-treated leaves (T0) were generated using the Illumina deep RNA sequencing (RNA-seq) strategy to detect the changes in gene expression in response to MeJA. In total, 37 647 unique sequences were obtained from about 21 million reads, and 25 641 (71.53{\%}) of these sequences were annotated based on the BLAST searches against the public databases. A total of 5287 unique sequences were expressed differentially between the samples of T0 and T12, which covered almost all the known genes involved in tanshinone and phenolic acid biosynthesis in S. miltiorrhiza. Many of the transcription factors (e.g. MYB, bHLH and WRKY) and genes involved in plant hormone biosynthesis and signal transduction were expressed differentially in response to the MeJA induction. Importantly, three and four candidate cytochrome P450s (P450s) that could be involved in the tanshinone and phenolic acid biosynthesis, respectively, were selected from the RNA-seq data based on co-expressed pattern analysis with SmCPS1/SmKSL1 and SmRAS, which are the key genes responsible for biosynthesis. This comprehensive investigation of MeJA-induced gene expression profiles can shed light on the molecular mechanisms of the MeJA-mediated bioactive compound biosynthesis and regulation in S. miltiorrhiza.",
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AU - Luo, Hongmei

AU - Zhu, Yingjie

AU - Song, Jingyuan

AU - Xu, Lijia

AU - Sun, Chao

AU - Zhang, Xin

AU - Xu, Yanhong

AU - He, Liu

AU - Sun, Wei

AU - Xu, Haibin

AU - Wang, Bo

AU - Li, Xian'en

AU - Li, Chuyuan

AU - Liu, Juyan

AU - Chen, Shilin

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