Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1229421 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR32510167_1.fastq.gz | Fastqsanger.gz | |||
| SRR32510167_2.fastq.gz | Fastqsanger.gz | |||
| SRR32510168_1.fastq.gz | Fastqsanger.gz | |||
| SRR32510168_2.fastq.gz | Fastqsanger.gz | |||
| SRR32510169_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 54 |
Similar Datasets
Project description:Acid rain, as a worldwide environmental issue, can cause serious damage to plants. In this study, we provided the first case study on the systematic responses of arabidopsis (Arabidopsis thaliana (L.) Heynh.) to simulated acid rain (SiAR) by transcriptome approach. In this dataset, we include the expression data obtained from Arabidopsis with simulated acid rain treatments for 68 hr, and contrasting with control group in the same time. Totally, 439 differetal expression genes were obtained in our stduy. Form them, 13 genes which dramatically changed their expression were found related to S metabolism.
2013-11-20 | GSE52487 | GEO
Project description:Acid rain is a global ecological issue severely threatening crop growth. Curcumin (CUR), a natural antioxidant, can enhance the tolerance of plants to abiotic stresses via physiological and molecular modes. As both medicine and food, Akebia trifoliata exhibits high economic value. The effects of acid rain stress on A. trifoliata and the mitigation potential of exogenous CUR remain unclear. To explore the impact of acid rain stress on A. trifoliata and the mitigation potential of exogenous CUR, we investigated the plant growth, physiological characteristics of leaves, anatomical structure, and gene expression of A. trifoliata under acid rain stress before and after treatment with exogenous CUR. The results indicated that under acid rain stress, the contents of chlorophyll a, chlorophyll b, total chlorophyll, and starch and thicknesses of upper and lower epidermis of leaves decreased by 58.16%, 77.88%, 64.77%, 63.85%, 58.93%, and 35.57%, respectively. Moreover, MDA, soluble sugar, soluble protein, and proline contents and production rate of oxygen free radicals increased by 82.55%, 43.20%, 44.55%, 64.40% and 345.77%, respectively. This suggested that acid rain stress affected the growth and development of A. trifoliata. A. trifoliata resisted acid rain stress by increasing SOD and CAT activities; thickness of leaf, palisade tissue, and spongy tissue; and ratio of palisade/spongy tissue. However, exogenous CUR could effectively facilitate plant growth, maintain integrity of anatomical structure of leaf, and relieve the damages to A. trifoliata caused by acid rain stress. Fifty μmol/L (CUR50) was the most optimal concentration. Transcriptomic analysis revealed that CUR0 vs Control, CUR50 vs Control, and CUR50 vs CUR0 had 2978, 3145, and 993 DEGs, respectively. KEGG enrichment analysis demonstrated that these DEGs are mainly associated with pathways such as ribosome, oxidative phosphorylation, plant hormone signal transduction, and phenylpropanoid biosynthesis. Collectively, this study, through physiological, anatomical, and transcriptomic analyses, elucidates the effects of acid rain stress on A. trifoliata and the mitigation potential of exogenous CUR, offering a theoretical foundation for the widespread cultivation of A. trifoliata and phytoremediation in acid rain-prone regions.
2025-04-10 | GSE294141 | GEO
Project description:Acid rain, as a worldwide environmental issue, can cause serious damage to plants. In this study, we provided the first case study on the systematic responses of arabidopsis (Arabidopsis thaliana (L.) Heynh.) to simulated acid rain (SiAR) by transcriptome approach. In this dataset, we include the expression data obtained from Arabidopsis with simulated acid rain treatments for 68 hr, and contrasting with control group in the same time. Totally, 439 differetal expression genes were obtained in our stduy. Form them, 13 genes which dramatically changed their expression were found related to S metabolism. 6 Total samples were analyzed. Total RNA was extracted using the RNeasy Plant Mini Kit (Qiagen). Preparation of labeled target cRNA was carried out following the technical manual of Arabidopsis Genome GeneChip array (Affymetrix). Double-stranded cDNA was synthesized from 5 M-NM-<g of template total RNA using the One-Cycle cDNA Synthesis kit (Affymetrix), and biotin labeled cRNA was synthesized using the IVT Labeling kit (Affymetrix). The labeled cRNA was purified with GeneChip Sample Cleanup Module (Affymetrix). The quality and quantity of the cRNA was checked by conducting gel electrophoresis. Twenty micrograms of the purified cRNA of each sample was fragmented and hybridized to arrays for 16 h at 45M-BM-0C. All arrays were washed and stained automatically by using a fluidics Station 450 (Affymetrix) and scanned by GeneChipM-BM-. scanner 3000 (Affymetrix). All procedures were performed according to the manufacturerM-bM-^@M-^Ys protocols (Affymetrix). Normalization and expression estimate computation were calculated from the .CEL output files from the Affymetrix GCOS 1.1 software using RMA implemented in R language using standard settings. Statistical testing for differential expression was performed with logic-t analysis. Functional categories were assigned to genes using the AGI number to search the MIPS database (http://mips.gsf.de/cgi-bin/proj/thal/) and the Arabidopsis Information Resource website, TAIR (http://www.arabidopsis.org/).
2013-11-20 | E-GEOD-52487 | biostudies-arrayexpress
Project description:Root rot disease poses a devastating threat to Coptis chinensis Franch, a medicinal plant prized for its bioactive alkaloids. To dissect its defense mechanisms, we conducted integrated transcriptomic and metabolomic analyses on resistant (R), early-stage infected (S-ES), and late-stage infected (S-LS) plants. Our findings reveal a disease severity-dependent escalation in flavonoid metabolism. Key metabolites, such as kaempferol and quercetin derivatives, were significantly increased compared to R, paralleled by progressive upregulation of biosynthetic genes (PAL, CHS, CHI, FLS). Strikingly, salicylic acid (SA)-associated metabolites and pathway genes (NPR1, NPR3/NPR4) showed no differential expression across groups, contrasting with typical SA-mediated defenses in other species. This study uncovers flavonoid biosynthesis as the primary defense strategy in C. chinensis during root rot progression, while SA signaling may not be the main defense mechanism. These results provide actionable targets for enhancing disease resistance in medicinal plants through metabolic engineering
2025-03-25 | GSE290673 | GEO
Project description:To reveal the potential mechanisms involved in the dysfunction of antiviral immune responses under simulated microgravity conditions, we investigated the transcriptional changes related to the status of innate immune responses by RNA-seq with poly I:C or mock PBS treatment under Normal gravity or simulated microgravity conditions. Our results indicate that the retinoic acid inducible gene (RIG)-I-like receptor (RLR) and Toll-like receptor (TLR) signal pathways, which are both involved in the type-I interferon induction, are significantly inhibited by simulated microgravity effects.
2020-12-22 | GSE145967 | GEO
Project description:Osteoporosis is a metabolic disease characterized by the destruction of bone microarchitecture and bone loss, which increases the risk of fractures and reduces quality of life. Understanding the biological mechanisms that promote bone formation is therefore of great importance. In this study, we performed transcriptomic sequencing to molecularly elucidate the effects of Ilex paraguariensis extracts on bone formation and bone-related health. Thus, this study identifies the potential mechanisms by which Ilex paraguariensis and Ligularia fischeri extracts influence bone formation and the bone microenvironment and suggests potential targets and benchmarks for biological research.
2025-07-07 | GSE301490 | GEO