Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Chlorophyll content is a sensetive indicator of silver nanoparticle toxicity in Arabidopsis thaliana

ABSTRACT: Purpose: Analyze changes in the transcriptome of Arabidopsis thaliana in response to sublethal concentrations of silver nanoparticles in order to gain insight into phytotoxicity caused by these nanomaterials. Methods: mRNA was extracted from non-treated and silver nanoparticle-treated 14-day old Arabidopsis thaliana seedlings using the RNAeasy extraction kit (Qiagen). RNA-seq libraries (3 rep/treatment and 3 reps/control) constructed with the TruSeq Stranded mRNA Sample Preparation kit (Illumina) were single-end sequenced (100-nt read length) on an Illumina HiSeq2500 system. Reads were mapped to the A. thaliana TAIR10 reference genome sequence and transcript levels were analyzed using the softare CLC Genomics Workbench (version 7.0.40, Qiagen). Results: Chronic exposure of A. thaliana plants to silver nanoparticles caused a change in abundance of transcripts involved in cell wall synhtesis and response to oxidative and biotic stress-related genes. Conclusions: While exposure to silver nanoparticle lead to gene expression changes, the reduction in chlorophyll concentration and carbon assimilation rate measured in exposed plants cannot be attributed to a shift in photosynthesis-related gene regulation.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE163583 | GEO | 2020/12/22

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Silver nitrate has a measurebale but minor impact on gene expression in Arabidopsis thaliana

Project description:Purpose: Analyze changes in the transcriptome of Arabidopsis thaliana in response to chronic exposure to silver nitrate at 4 μg/mL concentration. Methods: mRNA was extracted from non-treated and silver nitrate-treated 14-day old Arabidopsis thaliana seedlings using the RNAeasy extraction kit (Qiagen). RNA-seq libraries (3 rep/treatment and 3 reps/control) constructed with the TruSeq Stranded mRNA Sample Preparation kit (Illumina) were paired-end sequenced (100-nt read length) on an Illumina Nova Seq6000 system. Reads were mapped to the A. thaliana TAIR10 reference genome sequence and transcript levels were analyzed using the softare CLC Genomics Workbench (version 20.0.4, Qiagen). Results: Chronic exposure of A. thaliana plants to silver nitrate caused a change in the abundance of transcripts: AT2G01520 and AT4G12550, but no measureable impact on the rest of the transcriptome. Conclusions: Exposure of A. thaliana to silver nitrate at 4 μg/mL has minor impact on the transcriptome.

2022-03-15 | GSE198360 | GEO

Impact on Arabidopsis thaliana transcriptome of multifunctional silica nanoparticles based on metal atom clusters

Project description:au14-09_silice - clustop transcriptomics. - Understand and categorize plant mechanisms implicated in the interaction with nanoparticles, both in the phenomena responsible for toxicity as in accommodation, see detoxication. - Phytotoxicity of Cs2[Mo6Br14]@SiO2 nanoparticles and their components, i.e. Cs2[Mo6Br14] clusters and SiO2 nanoparticles, has been studied usign Arabidopsis thaliana cell suspension culture. Cs2[Mo6Br14]@SiO2 nanoparticles used here are composed of 7,5% clusters and 92,5% SiO2. Thus, to compare to the impact of a 100 mg/L Cs2[Mo6Br14]@SiO2 nanoparticle treatment (CS), we also treated Arabidopsis cells with clusters at 7,5 mg/L (C), SiO2 at 92,5 mg/L (S), and combined 7,5 mgCMB/L plus 92,5 mgSiO2/L (C+S).

2017-02-01 | GSE93182 | GEO

Transcriptome sequencing of A.thaliana leaves after exposure to silver nanoparticles.

Project description:RNA-Seq analysis was used for deep sequencing of transcriptome to detected molecular mechanisms of silver nanoparticles (AgNPs) and distinguish the effects of Arabidopsis thaliana exposure to AgNPs and Ag+.We identified 626 and 767 differentially expressed genes (DEGs) influenced by AgNPs and Ag+ respectively.302 genes were specifically regulated by the AgNPs treatment indicates that the nanoparticle-specific effects.This study provide a valuable resource for the discovery of genes related to special toxicity mechanism of AgNPs.

2021-08-03 | GSE118143 | GEO

Chlorophyll content is a sensetive indicator of silver nanoparticle toxicity in Arabidopsis thaliana

Project description:Chlorophyll content is a sensetive indicator of silver nanoparticle toxicity in Arabidopsis thaliana

| PRJNA686873 | ENA

DNA microarray analyses for HepG2 cells exposed to silver nanoparticles

Project description:From the result of the gene expression analyses of human hepatoma cell line, HepG2, a number of genes associated with cell proliferation and DNA repair were distinctively up-regulated by Ag-nanoparticle exposure, suggesting that Ag-nanoparticles might stimulate cell proliferation and DNA damage, which are considered to be mechanisms playing an important role for carcinogenesis and tumor progression. The inductions of these genes involved in cell proliferation were also observed in PS-nanoparticles and Ag2CO3-exposed cells. In addition, the inductions of DNA repair-associated genes were also observed in Ag2CO3-exposure. These results suggest that both “nanoshape” and “silver” can cause the inductions of these gene expression patterns. Furthermore, cysteine, a strong ionic silver ligand partially abolished these gene expressions induced by silver nanoparticles. Ionic silver sourced from Ag-nanoparticles could not fully explain these gene expressions.

2009-06-01 | GSE14452 | GEO

RNAseq of human epithelial lung carcinoma cell line A549 exposed to ceria, silver or zinc ions, micron-sized particles or nanoparticles

Project description:The toxicity of silver and zinc oxide nanoparticles is hypothesised to be mediated by dissolved metal ions and cerium dioxide nanoparticles (CeO2 NPs) are hypothesised to induce toxicity specifically by oxidative stress dependant on their surface redox state. To test these hypotheses, RNAseq was applied to characterise the molecular responses of cells to metal nanoparticle and metal ion exposures. The human epithelial lung carcinoma cell line A549 was exposed to different CeO2 NPs with different surface charges, micron-sized and nano-sized silver particles and silver ions, micron-sized and nano-sized zinc oxide particles and zinc ions, or control conditions, for 1 hour, 6 hours and 24 hours. Concentrations were the lower of either EC20 or 128 micrograms/mL. Transcriptional responses were characterised by RNAseq transcriptomics using an Illumina HiSeq2500 .

2018-02-01 | E-MTAB-5734 | biostudies-arrayexpress

Transcriptomic profiles of zebrafish embryos exposed to silver (nanoparticles, bulk and ions) using HT-SuperSAGE in a Illumina GA2 platform

Project description:Silver nanoparticles cause toxicity in exposed organisms and are an environmental health concern. The mechanisms of silver nanoparticle toxicity, however, remain unclear. We examined the effects of exposure to silver in nano-, bulk- and ionic forms on zebrafish embryos (Danio rerio) using a Next Generation Sequencing approach in an Illumina platform (High-Throughput SuperSAGE). Significant alterations in gene expression were found for all treatments and many of the gene pathways affected, most notably those associated with oxidative phosphorylation and protein synthesis, overlapped strongly between the three treatments indicating similar mechanisms of toxicity for the three forms of silver studied. Changes in oxidative phosphorylation indicated a down-regulation of this pathway at 24h of exposure, but with a recovery at 48h. This finding was consistent with a dose-dependent decrease in oxygen consumption at 24h, but not at 48h, following exposure to silver ions. Overall, our data provide support for the hypothesis that the toxicity caused by silver nanoparticles is principally associated with bioavailable silver ions in exposed zebrafish embryos. These findings are important in the evaluation of the risk that silver particles may pose to exposed vertebrate organisms. mRNA profiles of whole zebrafish embryos at 24 and 48 hours post-fertilisation (hpf) exposed to silver in nano, bulk and ionic forms were generated by deep sequencing using HT-SuperSAGE (Illumina GA2).

2013-06-17 | E-GEOD-38125 | biostudies-arrayexpress

Transcriptomic profiles of zebrafish embryos exposed to silver (nanoparticles, bulk and ions) using HT-SuperSAGE in a Illumina GA2 platform

2013-06-17 | GSE38125 | GEO

Changes in Arabidopsis thaliana gene expression in response to silver nanoparticles and silver ions

Project description:The release of silver nanoparticles (SNPs) in the environment has raised concerns about their effects on living organisms, including plants. In this study, changes in gene expression in Arabidopsis thaliana exposed to SNPs and silver ions (Ag+) were analyzed using Affymetrix expression microarrays. Exposure to 5 mg SNPs L-1 (20 nm) for 10 days resulted in up-regulation of 286 genes and down-regulation of 81 genes by reference to non-exposed plants. Exposure to 5 mg Ag+ L-1 for 10 days resulted in up-regulation of 84 genes and down-regulation of 53 genes by reference to non-exposed plants. Many genes differentially expressed by SNPs and Ag+ were found to be involved in plant response to various stresses: up-regulated genes were primarily associated with response to metals and oxidative stress (e.g., vacuolar cation/proton exchanger, superoxide dismutase, cytochrome P-450-dependent oxidase, and peroxidase), while down-regulated genes were more associated with response to pathogens and hormonal stimuli (e.g., auxin-regulated gene involved in organ size (ARGOS), ethylene signaling pathway, and systemic acquired resistance (SAR) against fungi and bacteria). A significant overlap was observed between genes differentially expressed in response to SNPs and Ag+ (13% and 21% of total up- and down-regulated genes, respectively), suggesting that SNP-induced stress originates partly from silver toxicity and partly from nanoparticle-specific effects. Three highly up-regulated genes in the presence of SNPs, but not Ag+, belong to the thalianol biosynthetic pathway, which is thought to be involved in plant defense system. Results from this study provide insights into the molecular mechanisms of plant response to SNPs and Ag+.

2014-02-12 | E-MEXP-3950 | biostudies-arrayexpress

Molecular mechanism of Arabidopsis thaliana seedlings in response to phytotoxicity of yttrium oxide nanoparticles

Project description:Molecular mechanism of Arabidopsis thaliana seedlings in response to phytotoxicity of yttrium oxide nanoparticles

| PRJNA886097 | ENA