Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Environmental pollution assessment using Mus spretus

ABSTRACT: We evaluated the suitability of high-throughput transcriptomics approach to monitor terrestrial ecosystems. Free-living Mus spretus from several polluted sites of Huelva (Andalusia, SW Spain) were compared with mice from Doñana Biological Reserve (“Santa Olalla” lagoon (SOL) used as negative control). As most popular bioindicators, M. spretus is poorly represented in gene databases, therefore limiting the use of genomics in ecotoxicological studies. To solve this problem, we used microarrays produced from mRNAs of M. musculus. Specifically we used the One-Color Gene Expression Platform commercialized by Agilent.

ORGANISM(S): Mus musculus Mus spretus

PROVIDER: GSE33663 | GEO | 2013/12/31

SECONDARY ACCESSION(S): PRJNA148635

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Environmental pollution assessment using Mus spretus

Project description:We evaluated the suitability of high-throughput transcriptomics approach to monitor terrestrial ecosystems. Free-living Mus spretus from several polluted sites of Huelva (Andalusia, SW Spain) were compared with mice from DoM-CM-1ana Biological Reserve (M-bM-^@M-^\Santa OlallaM-bM-^@M-^] lagoon (SOL) used as negative control). As most popular bioindicators, M. spretus is poorly represented in gene databases, therefore limiting the use of genomics in ecotoxicological studies. To solve this problem, we used microarrays produced from mRNAs of M. musculus. Specifically we used the One-Color Gene Expression Platform commercialized by Agilent. Gene expression in Mus spretus liver was assessed in mice from 5 sites of the Spanish Southwest. Five independent experiments were performed. The arrays were hybridized with labelled cRNA samples made from pooled livers of 9 mice per sampling site. We made 4 technichal repetitions per sample.

2013-12-31 | E-GEOD-33663 | biostudies-arrayexpress

Which role for genomics in environmental risk assessment? A case study in Venice Lagoon.

Project description:DNA microarray analyses of Ruditapes philippinarum sampled in Venice lagoon areas subjected to different anthropogenic impact. A comparative analysis of gene expression was conducted between Manila clam from lowly-polluted Chioggia and Colmata area and polluted Marghera site.

2013-10-01 | E-GEOD-50062 | biostudies-arrayexpress

Transcription profiling of human peripheral blood from adults and children individuals exposed to different levels of air pollution

Project description:Comparison of genome-wide gene expression between humans living in areas of high levels of air pollution and less polluted areas. Experiment Overall Design: The study investigated differential gene expression in peripheral blood from 23 children and 12 adults from a region of residence with high levels of air pollution as compared to 24 children and 12 adults from a less-polluted area.Two conditions: living in the polluted or in the less-polluted area. One individual per array, hybridized against a common reference sample

2008-06-15 | E-GEOD-7543 | biostudies-arrayexpress

Differential gene expression between individuals exposed to different levels of air pollution

Project description:Comparison of genome-wide gene expression between humans living in areas of high levels of air pollution and less polluted areas. Keywords: Comparison of genome-wide gene expression between different conditions

2008-04-17 | GSE7543 | GEO

Genome-wide transcriptional profiling of C. elegans in a heavy metal contaminated soil after nZVI treatment

Project description:Classical ecotoxicological test and high-throughput molecular tools (microarray) were conducted on C. elegans to assess the effectiveness and ecosafety of a nanoremediation strategy applied to a highly polluted soil environment with heavy metals (HMs). We stablished a profiled gene expression in C. elegans exposed to the polluted soil, treated and untreated with nZVI. The results obtained showed that the percentage of differentially expressed genes decreased with the exposure time to nZVI. The expression profile of genes associated with stress response, metal toxicity, proteolysis, immune response, and cuticle development resulted affected. At short term, when a more effective HMs immobilization has occurred genes related to specific heavy metal detoxification mechanisms or to response to metal stress, were down regulated. After longer exposure time, we found decreased effectiveness of nZVI and increased HMs toxicity, whereas the transcriptional oxidative and metal-induced responses were attenuated.

2022-01-24 | GSE145995 | GEO

Pollution Effects on Sensitive and Resistant Embryos: Integrating Structure and Function with Gene Expression

Project description:To explore how gene expression translates to developmental phenotype in both sensitive and resistant Fundulus embryos upon POP exposure, we exposed Fundulus embryos from the Elizabeth River Superfund population and the Magotha Bay, VA clean population to Elizabeth River polluted sediment extracts and measured chemical uptake, gene expression, and altered embryo anatomy, morphology and cardiac physiology during four critical developmental stages: somitogenesis, heart beat initiation, late organogenesis, and pre-hatching.

2019-05-07 | GSE130754 | GEO

Pollution Effects on Metabolic Gene Expression During Late Organodifferenatiation of Sensitive, Resistant and Hybrid Vertebrate Embryos

Project description:The goal was to determine differences in gene expression of 384 metabolic genes during late organogenesis among embryos of parents from a clean site (Magotha Bay, VA) and polluted site (Elizabeth RIver, VA). Hybrid gene expression was examined to explore parental effect. Embryo morphology and heart rate during late organogenesis and pre-hatching was assessed in order to determine phenotypic differences between embryo groups.

2019-07-19 | GSE134501 | GEO

soil metagenome

Project description:Amplicon metagenomics of saline soils from Odiel Saltmarshes (SW Spain)

| PRJNA378479 | ENA

Impact of heavy atmospheric pollution on the transcriptome of Escherichia coli BW25113 and the adapted E. coli strain T56-1

Project description:Expression profile of E. coli BW25113 grown under standard laboratory atmosphere with a fine particulate matter (PM2.5) concentration of 17 mg m-3, under urban polluted atmosphere with a PM2.5 of 230 mg m-3 or under diesel exhaust atmosphere with a PM2.5 of 613 mg m-3. Expression profile of the diesel exhaust atmosphere-adapted E. coli strain T56-1 grown under diesel exhaust atmosphere.

2019-08-07 | GSE115330 | GEO

Gene expression profile in mouse skeletal muscle after Mettl21c deletion

Project description:Analysis of soleus (SOL) muscle isolated from wildtype (WT) and Mettl21cLacZ/LacZ mice (KO). Results provide unbiased gene expression profile of SOL muscle after Mettl21c deletion.

2022-10-01 | GSE122053 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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