Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Expression data from 29-day old Arabidopsis plants

ABSTRACT: Metal oxide engineered nanoparticles, which are widely used in diverse applications, are known to impact terrestrial plants. These nanoparticles have a potential to induce changes in plant tissue transcriptomes, and thereby the productivity. Here we looked at how the two commonly used nanoparticles, nano-titania (TiO2) and nano-ceria (CeO2) can impact the underlying mechanisms associated plant growth at genome level. We used microarrays to detail the global programme of gene expression underlying various physiological processes associated with growth and development, and identified distinct classes of up-regulated genes during this process.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE80461 | GEO | 2016/05/31

SECONDARY ACCESSION(S): PRJNA318986

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Expression data from 29-day old Arabidopsis plants

Project description:Metal oxide engineered nanoparticles, which are widely used in diverse applications, are known to impact terrestrial plants. These nanoparticles have a potential to induce changes in plant tissue transcriptomes, and thereby the productivity. Here we looked at how the two commonly used nanoparticles, nano-titania (TiO2) and nano-ceria (CeO2) can impact the underlying mechanisms associated plant growth at genome level. We used microarrays to detail the global programme of gene expression underlying various physiological processes associated with growth and development, and identified distinct classes of up-regulated genes during this process. 29 day old Arabidopsis plants were selected for RNA extraction from roots and rosette leaves, followed by hybridization on Affymetrix microarrays. Arabidopsis plants were exposed twice during the germination stage (Days 0 and 4), and once during the primary rosette stage (Day 17), to 500mg/L concentration of nano-titania and nano-ceria, followed by extraction of RNA from 29-day old plant tissues (roots and rosette leaves) for Microarray analysis. 0.1mM KCl was used as control for nano-titania, whereas sterilized millipore water was used as control for nano-ceria.

2016-05-31 | E-GEOD-80461 | biostudies-arrayexpress

Expression data from 12-day old Arabidopsis germinants

2014-07-29 | GSE59809 | GEO

Expression data from 12-day old Arabidopsis germinants

Project description:Seed germination of a terrestrial plant constitute dynamic changes in various physiological processes related to growth and development. These physiological processes can be affected by various abiotic and biotic stressors. Here we looked at how the two commonly used nanoparticles, nano-titania (TiO2) and nano-ceria (CeO2) can impact the underlying mechanisms associated with germination at genome level. We used microarrays to detail the global programme of gene expression underlying various physiological processes associated with growth and development, and identified distinct classes of up-regulated genes during this process. 12 day old Arabidopsis germinants were selected for RNA extraction and hybridization on Affymetrix microarrays. Arabidopsis seeds were individually exposed to 500mg/L concentration of nano-titania and nano-ceria for 12 days, followed by extraction of RNA for Microarray analysis. 0.1M KCl was used as control for nano-titania, whereas sterilized millipore water was used as control for nano-ceria.

2014-07-29 | E-GEOD-59809 | biostudies-arrayexpress

Differential Genomic Effects of Six Different Nanomaterials on Human Liver HepG2 Cells

Project description:Human Hepatocellular Carcinoma cells (HepG2) were exposed to six nanomaterials containing either Cerium oxide (CeO2) or Titanium oxide (TiO2) nanoparticles. Three different concentrations were tested: 0.3, 3, or 30 μg/mL) for 3 days. Microarray analysis was performed to identify genes differentially expressed following exposure to these chemicals.

2018-08-28 | GSE117056 | 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

Toxicogenomic effects of nano- and bulk TiO2 particles in the soil nematode Carnorhabditis elegans

Project description:The toxicity and toxicogenomics of selected anatase and rutile nanoparticles (NP) and bulk titanium dioxide (TiO2) particles were evaluated in the soil nematode Caenorhabditis elegans. Results indicated that bulk or nano-TiO2 particles were slightly toxic to soil nematode C. elegans, as measured by reproduction EC50 values ranging from 4 to 32 mg/L. Whole-genome microarray results indicated that the regulation of glutathione-S-transferase gst-3, cytochrome P450 cypp33-c11, stress resistance regulator scl-1, oxidoreductase wah-1, and embryonic development pod-2 genes were significantly affected by nano-sized and bulk TiO2 particles. More specifically, it was determined that anatase particles exerted a greater effect on metabolic pathways, whereas rutile particles had a greater effect on developmental processes. The up-regulation of the pod-2 gene corroborated the phenotypic effect observed in the reproduction test. Our results demonstrated that C. elegans is a good genomic model for nano-TiO2 toxicity assessment.

2014-07-17 | GSE59470 | GEO

An Adaptive Response through N6-Methyladenosine in Fetal Offspring following Gestational Nano-TiO2 Inhalation Exposure I

Project description:Background: N6-methyladenosine (m6A) is the most prominent epitranscriptomic modification to RNA in eukaryotes, but it’s role in adaptive changes within the gestational environment are poorly understood. Nano titanium dioxide (TiO2) exposure is common during pregnancy, though the impact fetal progeny is not entirely understood. We propose that gestational exposure to nano-TiO2 contributes to cardiac m6A methylation in fetal offspring and indirectly contributes to mitochondrial dysfunction.

2022-08-24 | GSE211479 | GEO

An Adaptive Response through N6-Methyladenosine in Fetal Offspring following Gestational Nano-TiO2 Inhalation Exposure II

2022-08-24 | GSE211480 | GEO

Expression data from C. elegans treated with anatase TiO2 nanoparticles

Project description:The nematode C. elegans was exposed to TiO2 nanoparticles (NPs) to evaluate the ecotoxicity of TiO2 nanoparticles. We used the DNA microarray method to understand changes in gene expression after the exposure to TIO2 NPs. We identified various genes involved in metal detoxification as well as in regulating worm development.

2017-03-03 | GSE95603 | GEO