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ABSTRACT: Sequencing of hairy roots of broccoli induced by MeJA

PROVIDER: PRJNA608795 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR11183109_1.fastq.gz	Fastqsanger.gz
	SRR11183109_2.fastq.gz	Fastqsanger.gz
	SRR11183110_1.fastq.gz	Fastqsanger.gz
	SRR11183110_2.fastq.gz	Fastqsanger.gz
	SRR11183111_1.fastq.gz	Fastqsanger.gz

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Project description:Tanshinones and phenolic acids are crucial bioactive compounds biosynthesized in Salvia miltiorrhiza. Methyl jasmonate (MeJA) is an effective elicitor to enhance the production of phenolic acids and tanshinones simultaneously, while yeast extract (YE) is used as a biotic elicitor that only induce tanshinones accumulation. However, little was known about the different molecular mechanism. To identify the downstream and regulatory genes involved in tanshinone and phenolic acid biosynthesis, we conducted comparative transcriptome profiling of S. miltiorrhiza hairy roots treated with either MeJA or YE.Total 55588 unigenes were assembled from about 1.72 billion clean reads, of which 42458 unigenes (76.4%) were successfully annotated. The expression patterns of 19 selected genes in the significantly upregulated unigenes were verified by quantitative real-time PCR. The candidate downstream genes and other cytochrome P450s involved in the late steps of tanshinone and phenolic acid biosynthesis pathways were screened from the RNA-seq dataset based on co-expression pattern analysis with specific biosynthetic genes. Additionally, 375 transcription factors were identified to exhibit a significant up-regulated expression pattern in response to induction. This study can provide us a valuable gene resource for elucidating the molecular mechanism of tanshinones and phenolic acids biosynthesis in hairy roots of S.miltiorrhiza.

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Analysis of gene expression patterns of Arabidopsis roots grown in methyl jasmonate (MeJA), cytokinin (CK), MeJA/CK- treated conditions

Project description:Purpose: Understanding of MeJA, CK effect on regulation of gene expression patterns in Arabidopsis roots Total mRNA was extracted from 7-day-old Arabidopsis roots grown in MeJA (10uM), CK (50nM) and MeJA/CK-treated conditions. To generate cDNA libraries with TruSeq RNA library kit, 1 Î¼g of total RNA was used. This step consisted of polyA-selected RNA extraction, RNA fragmentation, random hexamer primed reverse transcription and 100 nt paired-end sequencing by Illumina HiSeq2000. 4,403 genes satisfying |fold change|â¥2 in at least one data set were collected.

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Project description:Transcriptome sequencing of MeJA-treated broccoli samples

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Project description:Stresses from either biotic or abiotic origins can have significant impact towards plant physiology and molecular regulation. Jasmonate acid (JA) and its derivative, methyl JA (MeJA) are hormonal cues released by plants which signal defensive response to curb the damage from such stresses. In an attempt to study the defensive response, a tropical herbal plant, Persicaria minor (P. minor) which is known for its pungent smell as well as various bioactivities including antimicrobial and anti-cancer, has been treated with MeJA to invoke the stress signaling. Such elicitation has been performed in various plants such as Arabidopsis, rice and hairy root cultures of certain herbs, yet how MeJA directly influenced the proteome of a herbal species particularly P. minor has not been previously elucidated. In this study, P. minor plants was exogenously treated with MeJA and its proteome was investigated using a new proteomics approach called SWATH-MS.

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