Transcriptome Sequencing in Response to Salicylic Acid in Salvia miltiorrhiza

Abstract

Salvia miltiorrhiza is a traditional Chinese herbal medicine, whose quality and yield are often affected by diseases and environmental stresses during its growing season. Salicylic acid (SA) plays a significant role in plants responding to biotic and abiotic stresses, but the involved regulatory factors and their signaling mechanisms are largely unknown. In order to identify the genes involved in SA signaling, the RNA sequencing (RNA-seq) strategy was employed to evaluate the transcriptional profiles in S. miltiorrhiza cell cultures. A total of 50,778 unigenes were assembled, in which 5,316 unigenes were differentially expressed among 0-, 2-, and 8-h SA induction. The up-regulated genes were mainly involved in stimulus response and multi-organism process. A core set of candidate novel genes coding SA signaling component proteins was identified. Many transcription factors (e.g., WRKY, bHLH and GRAS) and genes involved in hormone signal transduction were differentially expressed in response to SA induction. Detailed analysis revealed that genes associated with defense signaling, such as antioxidant system genes, cytochrome P450s and ATP-binding cassette transporters, were significantly overexpressed, which can be used as genetic tools to investigate disease resistance. Our transcriptome analysis will help understand SA signaling and its mechanism of defense systems in S. miltiorrhiza.

Transcriptome analysis of Clinopodium gracile (Benth.) Matsum and identification of genes related to Triterpenoid Saponin biosynthesis

“…of unigenes = 61,400; mean unigene length = 731 bp; N50 = 1334 bp) [29], and Salvia miltiorrhiza (no. of unigenes = 50,778; mean unigene length = 868.75 bp; N50 = 1618 bp) [30]. These results demonstrate the reliability of the C. gracile transcriptome.…”

Identification and characterization of the cytosine-5 DNA methyltransferase gene family inSalvia miltiorrhiza

“…DNA methylation plays a vital role in plant defense by regulating the expression of a subset of stress responsive genes and is involved in priming of salicylic acid (SA)-dependent immunity ( López Sánchez et al, 2016 ; Yu et al, 2013 ). In order to investigate the potential role of SmC5-MTases in plant defense, RNA-seq data from SA-treated S. miltiorrhiza cell cultures was analyzed ( Zhang et al, 2016 ). The transcripts of all SmC5-MTase genes were determined in S. miltiorrhiza cell cultures and the majority of them were significantly suppressed at 8 h after SA treatment ( Fig.…”

“…RNA-seq reads from S. miltiorrhiza hairy roots treated with yeast extract (YE) and methyl jasmonate (MeJA) were downloaded from SRA database under the accession number SRP111399 ( Zhou et al, 2017 ). RNA-seq data for S. miltiorrhiza cell cultures treated with salicylic acid (SA) were downloaded from SRA database under the accession number SRX1423774 ( Zhang et al, 2016 ). Differential transcript abundance was analyzed using TopHat2.0.12 and Cufflinks2.2.1 ( Trapnell et al, 2012 ).…”

Combined Analysis of the Metabolome and Transcriptome Identified Candidate Genes Involved in Phenolic Acid Biosynthesis in the Leaves of Cyclocarya paliurus

“…TFs are critical proteins that regulate gene expression and signal transduction networks during plant growth and development [58]. They also participate in various biological process, including developmental regulation, defense elicitation and stress responses [59][60][61][62]. Based on correlation network analysis, a total of 128 TFs were identified to be related to guiding genes.…”