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ABSTRACT: Metatranscriptome analysis of Panax ginseng

PROVIDER: PRJNA1052978 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR27216483_1.fastq.gz	Fastqsanger.gz
	SRR27216483_2.fastq.gz	Fastqsanger.gz
	SRR27216484.fastq.gz	Fastqsanger.gz
	SRR27216485.fastq.gz	Fastqsanger.gz

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Transcriptional profiling by high throughput sequencing of Panax ginseng C.A. Meyer leaf and stem transcriptomes during the leaf-expansion period.

Project description:In order to research the ginseng leaf-stem gene expression profiles of and dig out its function genes in the leaf-expansion period, the transcriptomic sequencing technology was set up the first time for five years the transcription of the Panax ginseng leaf-stem in the leaf-expansion period.

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Analysis of Panax ginseng secreted proteins under salt stress

Project description:Salt stress is one of the major abiotic stresses affecting the yield of ginseng (Panax ginseng C. A. Meyer). The objective of this study was to identify proteins of ginseng, which is responsive in salt stress. In this direction, ginseng plants of different growth stages (3, 4 and 5 years), were grown in the hydroponic conditions and exposed to 5 ds/m salt concentration. The secreted proteins, collected from the water, at 0, 24, 72 and 120 hours after exposure were used for the proteome analysis using shotgun approaches. Through the shotgun proteomics, a total of 155 and 88 secreted proteins were identified by searching in two RNA-sequencing (RNA-seq) database, respectively.

2022-11-17 | PXD010322 | Pride

Transcript profiles of the flowering period Panax ginseng C.A. Meyer root and analysis the gene function

Project description:Panax ginseng C.A. Meyer is one of the most popular medicinal herbs. In order to research the genes that related to the flowering period of ginseng, and find out the antifungal proteins and transcription factors that combat various biotic and abiotic stress, a cDNA sample was prepared from the flowering period ginseng root of a five-year-old plant and sequenced using the Illumina sequencing platform. In this study, we produced nearly 40 million sequencing reads. These reads were assembled into 134,045 contigs using Trinity software (mean size: 282 bp). Based on a similarity search with known proteins, we identified 79,307 sequences with a cut-off E-value of 10-5. Assembled sequences were then annotated using gene ontology (GO) terms, clusters of orthologous group (COG) classifications and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways respectively.

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Label-free Quantitative Proteomic analysis of drought-responsive proteins in Panax ginseng Meyer

Project description:Korean ginseng (Panax ginseng Meyer) has long been cultivated as an important medicinal plant. Drought results from the moderate water loss, which primarily impairs the growth of ginseng and reduction of yield loss. However, basis of biological clues to understanding the accurate mechanisms related to drought stress in proteome level are still elusive. Therefore, we carried out label-free quantitative proteomic analysis using ginseng roots subjected to drought stress which was grown at less than 10% soil moisture for two weeks, compared with normal ginseng which was grown at 25% soil moisture. The acquired proteins were carried out label-free proteomic analysis using LC-MS/MS. This approach led to the identification of total 2,471 proteins, and out of 195 proteins showed significant modulation. Functional classification revealed that proteins related to secondary metabolites, calcium signaling, and photosynthesis were enriched in control sample (cluster_1), while proteins associated with stress responsive, redox, electron transport, and protein synthesis were mainly dominated in cluster_2 (drought stress condition). Taken together, our results provided an overview of the drought-induced proteomic changes in ginseng root, and it is correlated with physiological changes, contributing to reveal potential marker at proteome level in ginseng.

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Transcriptome analysis of the effects of cold stress on Panax ginseng embryogenic calli

Project description:We reported the first study of transcriptome analyses using the Illumina HiSeq4000 platform for low temperature stress on callus of Panax ginseng. In total, over 546,139,358 clean reads were produced and 44,953 unigenes were assembled; Q30 results are above 95%. Differentially Expressed Gene analysis identified 9,435 and 6,345 unigenes which were expressed either higher or lower in treatment group samples(T) when compared with control group (C). We can find that the differential gene is more expressed in the T_4 vs C_4 group than in the other comparison groups, thus demonstrating that the differential gene expression is more active. Chilling treatment for 2th-6th day, the total saponin content of the treatment group was significantly higher than that of the control group, and reached the maximum on the forth day of treatment, and then gradually decreased. There is a synergistic trend between differential gene expression and saponin content at different treatment times. The accuracy of these de novo sequences was validated by RT-qPCR analysis. A number of transcription factor genes were also filtrated that presumably related to environmental cold stress. These data will enrich our knowledge of triterpenoid saponin biosynthesis and provide a theoretical foundation for molecular research on Panax ginseng.

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