Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

A genome-wide approach in Arabidopsis thaliana to assess the toxicity of cadmium sulfide quantum dots

ABSTRACT: Cadmium sulfide quantum dots (CdS QDs) are widely used in novel equipment. The relevance of the research lies in the need to develop risk assessments for nanomaterials, using as basis a model plant species. Here a screen of Arabidopsis thaliana mutant lines was performed in an attempt to identify plants tolerant to CdS QDs. Two tolerant Ds insertion mutant lines (atnp01 and atnp02) were identified. A whole-genome microarray experiment showed how genes were regulated by CdS QDs. Most of the genes involved in the response to CdS QDs were related to detoxification and general metabolism. The two mutant lines treated with CdS QDs showed different patterns of gene expression.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE53989 | GEO | 2014/06/15

SECONDARY ACCESSION(S): PRJNA234288

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

A genome-wide approach in Arabidopsis thaliana to assess the toxicity of cadmium sulfide quantum dots

Project description:Cadmium sulfide quantum dots (CdS QDs) are widely used in novel equipment. The relevance of the research lies in the need to develop risk assessments for nanomaterials, using as basis a model plant species. Here a screen of Arabidopsis thaliana mutant lines was performed in an attempt to identify plants tolerant to CdS QDs. Two tolerant Ds insertion mutant lines (atnp01 and atnp02) were identified. A whole-genome microarray experiment showed how genes were regulated by CdS QDs. Most of the genes involved in the response to CdS QDs were related to detoxification and general metabolism. The two mutant lines treated with CdS QDs showed different patterns of gene expression. The genome-wide expression profile of seedlings of the two selected resistant mutants were acquired and compared to that of wild type seedlings using the Arabidopsis ATH1 Genome Array. The wild type seedlings were exposed to either 0 mg/L, 40 mg/L (1/2 MIC) or 80 mg/L (MIC wt) CdS QDs, and each of the resistant/tolerant mutant line plants to either 0 mg/L or 80 mg/L CdS QDs for 21 days.

2014-06-15 | E-GEOD-53989 | biostudies-arrayexpress

Whole transcriptome analysis of cadmium sulphide quantum dots response in Saccharomyces cerevisiae

Project description:Cadmium sulphide quantum dots (CdS QDs) are widely used in novel equipment. The relevance of the research lies in the need to develop risk assessments for nanomaterials (ENMs), using baker's yeast as model system. A whole-genome microarray experiment, performed on Saccharomyces cerevisiae (BY4742), showed how genes were regulated in response to CdS QDs.

2019-04-03 | GSE125759 | GEO

Transcriptome Profile of Quantum Dots on Saccharomyces cerevisiae

Project description:Transcriptome Profile of CdSe/ZnS and InP/ZnS Quantum Dots on Saccharomyces cerevisiae

2021-01-30 | GSE165805 | GEO

Isolating the Escherichia coli transcriptomic responses to superoxide generation and stress from cadmium chalcogenide quantum dots

Project description:In this study we investigate the transcriptomic response of Escherichia coli to CdTe-2.4 and benign CdSe-2.4 quantum dots, each with and without illumination to elucidate the phototherapeutic effect of CdTe-2.4. Our analysis sought to separate the transcriptomic responses of E. coli to the presence of superoxide and the presence of cadmium chalcogenide nanoparticles. We found eight genes to be consistently differentially expressed as a response to superoxide generation, and these genes demonstrate a consistent association with the DNA damage response and deactivation of iron-sulfur clusters, characteristic of a superoxide response. We found eighteen genes associated the presence of cadmium-based quantum dots, in isolation from the superoxide effect. In further analysis of these genes, we performed both amino acid supplementation and gene knockout experiments, identifying the importance of leucyl-tRNA downregulation as a cadmium-based QD response, as well as reinforcing the relationship between CdTe-2.4 stress and iron-sulfur clusters through the gene tusA. This study demonstrates the transcriptomic response of E. coli to CdTe-2.4 and CdSe-2.4 quantum dots and parses the different effects of superoxide versus material effects on the bacteria. Our findings may provide useful information towards the development of quantum dot-based antibacterial therapy in the future.

2019-02-02 | GSE126008 | GEO

Transcriptome Profile of Quantum Dots on Saccharomyces cerevisiae

Project description:Transcriptome Profile of Quantum Dots on Saccharomyces cerevisiae

| PRJNA697950 | ENA

Genome-wide analysis of the toxic effect of hydroxyl-modified Graphene quantum dots (GQD) on normal human esophageal epithelial cells

Project description:The objective was to investigate the toxic effect of hydroxyl-modified Graphene quantum dots (GQD) on normal human esophageal epithelial cells at gene expression level. Gene expression profilings between GQD and vehicle treated cells were compared.

2017-03-17 | GSE96720 | GEO

Transcriptional profiling of E. coli cultures exposed to green or red CdTe Quantum Dots 50 µg/ml

Project description:E. coli cultures were exposed to green or red CdTe Quantum Dots 50 µg/ml during 15 min. Total RNA was extracted and cDNA labeled probes were generated by reverse transcription using Alexa 555 and Alexa 647 fluorophores. These probes were used to hybridize genomic slides containing genomic arrays to determine global transcriptional changes.

2014-12-01 | GSE58912 | GEO

Whole transcriptome analysis of cadmium sulphide quantum dots response in Saccharomyces cerevisiae

Project description:Whole transcriptome analysis of cadmium sulphide quantum dots response in Saccharomyces cerevisiae

| PRJNA517461 | ENA

Epigenetic characterization of carbon dots functions in rice

Project description:Nanoparticles (NPs) can serve as efficient carriers for delivery of genetic materials in plants. They can regulate normal growth and development, and responses to stresses in plants. However, epigenetic mechanisms underlying NPs or carbon dots (CDs) affecting plant growth and development are still largely unknown. Here we showed that CDs reprogrammed gene transcription associated with some biological processes such as stress responses and photosynthesis. Moreover, CDs resulted in subtle but significant DNA hypermethylation, especially for CHG and CHH hypermethylation, which is possibly caused by CDs induced up-regulation of OsCMTs. Interestingly, we found that CDs stabilized i-motif in the promoter regions of OsCMTs1/2, therefore resulting in CHG and CHH hypermethylation. Thus, our study for the first time reveals possible mechanisms underlying impacts of CDs on cytosine context-dependent DNA methylation on a genome-wide scale, which may regulate genes responsible for CDs-induced phenotypic changes in plants. It will be helpful for considering future application of CDs in improving crop agronomic traits.

2024-11-23 | GSE189428 | GEO

Isolating the Escherichia coli transcriptomic responses to superoxide generation and stress from cadmium chalcogenide quantum dots

Project description:Isolating the Escherichia coli transcriptomic responses to superoxide generation and stress from cadmium chalcogenide quantum dots

| PRJNA518888 | ENA

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data