Identification of early jasmonate-responsive genes in Taxus  × media cells by analyzing time series digital gene expression data

Physiology and Molecular Biology of Plants : an International Journal of Functional Plant Biology
Rongjia MaoZhigang Guo

Abstract

Jasmonate, an effective elicitor, can induce the biosynthesis of paclitaxel, a well-known anticancer drug, in Taxus cell culture. The jasmonate signaling pathway has been well studied in Arabidopsis, and many early jasmonate-responsive genes have been found to be involved in signaling pathway. In Taxus, only a few late jasmonate-responsive genes related to paclitaxel biosynthesis were identified. So, identification of early responsive genes and knowledge of the jasmonate signaling pathway are essential for understanding the effects of jasmonate on paclitaxel biosynthesis and for improving paclitaxel production in Taxus cells. In this study, total RNA of Taxus × media cells cultured in liquid medium was extracted after 0, 0.5, 3, and 24 h of methyl jasmonate treatment. Three biological independent repetitions were performed. The 12 extracted RNA samples were integrated and sequenced on an Illumina HiSeq 2500 platform using the paired-end method. A total of 45,583 transcript clusters were obtained by de novo assembly of the sequenced reads. Based on the transcriptome data, the digital gene expressions of each RNA sample were investigated. We found that after 0.5, 3, and 24 h of methyl jasmonate treatment; 134, 1008, and 987 unige...Continue Reading

References

Sep 27, 2001·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Y SasakiS Tabata
Nov 6, 2001·Applied Microbiology and Biotechnology·S Jennewein, R Croteau
Jul 18, 2006·Nucleic Acids Research·Jia YeJun Wang
May 22, 2008·Plant & Cell Physiology·Tsubasa ShojiTakashi Hashimoto
May 29, 2009·The Plant Journal : for Cell and Molecular Biology·Abraham J K KooGregg A Howe
Feb 1, 2006·Phytochemistry Reviews : Proceedings of the Phytochemical Society of Europe·Rodney CroteauMark R Wildung
Jan 15, 2014·Anti-cancer Drugs·Mansukh C Wani, Susan Band Horwitz
Jan 17, 2014·Molecular Plant·Henning Frerigmann, Tamara Gigolashvili
Jun 10, 2014·Plant Biotechnology Journal·Ana-Belén Sabater-JaraRosa M Cusidó

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Citations

Apr 25, 2019·International Journal of Molecular Sciences·Yunpeng CuiZhigang Guo

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Datasets Mentioned

BETA
SRP133890
SRP133888

Methods Mentioned

BETA
PCR
acylation

Software Mentioned

TopHat
BLAST
Trinity
R
Primer3
WEGO

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