Transcriptome analysis of liver and kidneys of rats chronically fed a NK603 Roundup-tolerant genetically modified maize [kidney]
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ABSTRACT:
ORGANISM(S): Rattus norvegicus
PROVIDER: GSE73884 | GEO | 2016/10/01
SECONDARY ACCESSION(S): PRJNA298342
REPOSITORIES: GEO
Similar Datasets
Project description:There is an ongoing debate on the potential toxicity of genetically modified food. The ability of rodent feeding trials to assess the potential toxicity of these products is highly debated since a 2-year study in rats fed NK603 Roundup-tolerant genetically modified maize, treated or not with Roundup during the cultivation, resulted in anatomorphological and blood/urine biochemical changes indicative of liver and kidney structure and functional pathology. We used microarrays to detail the alterations in gene expression profiles associated with the consumption of a Roundup-tolerant genetically modified maize (NK603) sprayed or unsprayed with a Roundup herbicide from these same animals.
2016-10-01 | GSE73886 | GEO
Project description:Glyphosate tolerant genetically modified (GM) maize NK603 was assessed as substantially equivalent to its isogenic counterpart by a nutrient composition analysis in order to be granted market approval. We have applied contemporary in depth molecular profiling methods of NK603 maize kernels (sprayed or unsprayed with Roundup) and the isogenic corn to reassess its substantial equivalence status. Proteome profiles of the maize kernels revealed alterations in the levels of enzymes of glycolysis and TCA cycle pathways, which were reflective of an imbalance in energy metabolism. Changes in proteins and metabolites of glutathione metabolism were indicative of increased oxidative stress. The most pronounced metabolome differences between NK603 and its isogenic counterpart consisted of an increase in polyamines including N-acetyl-cadaverine (2.9-fold), N-acetylputrescine (1.8-fold), putrescine (2.7-fold) and cadaverine (28-fold), which depending on context can be either protective or a cause of toxicity. Our molecular profiling results show that NK603 and its isogenic control are not substantially equivalent.
2018-10-15 | MSV000083034 | MassIVE
Project description:Transcriptome analysis of liver and kidneys of rats chronically fed a NK603 Roundup-tolerant genetically modified maize
| PRJNA298337 | ENA
Project description:This project aimed to investigate the effects of glyphosate-based herbicide Roundup LB Plus on bacteria. For this, ten environmental strains of Salmonella enterica were exposed to the increasing concentrations of Roundup over several passages to obtain Roundup-resistant mutants. Four stable re-sequenced resistant mutants and their respective ancestors were characterized by global proteomics in the presence and absence of sub-inhibitory (1/4xMIC) concentrations of the herbicide. By comparing the proteomes of the Roundup-challenged ancestors with constitutive non-challenged ancestors, it became possible to deepen the understanding of how Roundup stress affects naïve bacteria. Similarly, comparing Mutants versus Ancestors in the absence of Roundup allowed to understand how Roundup resistance constitutively affects bacterial physiology, while the comparison of Roundup-challenged mutants versus constitutive mutants helped improve the understanding of the inducible responses in the resistant background.
2020-09-22 | PXD019463 | Pride
Project description:This study aimed to investigate the hepatic transcriptional response of brown trout to glyphosate, and its formulated product, Roundup. We exposed juvenile female brown trout to three concentrations of glyphosate (0.01, 0.5 and 10 mg/L) and Roundup (0.01, 0.5 and 10 mg/L glyphosate acid equivalent) for 14 days and sequenced the hepatic transcriptome of 6 individual females per treatment group in order to determine the global mechanisms of toxicity of this widely used herbicide. We assembled the brown trout transcriptome using an optimised de novo approach, and subsequent differential expression analysis identified a total of 1020 differentially-regulated transcripts across all treatments. Differentially-expressed transcripts included those encoding components of the antioxidant system, a number of stress-response proteins and pro-apoptotic signalling molecules. Functional analysis also revealed over-representation of pathways involved in regulation of cell-proliferation and turnover, and up-regulation of energy metabolism and other metabolic processes. Together, these transcriptional changes are consistent with generation of oxidative stress and the widespread induction of compensatory cellular stress response pathways. The mechanisms of toxicity identified were similar across both glyphosate and Roundup treatments, including for environmentally relevant concentrations. The significant alterations in transcript expression observed at the lowest concentrations tested raises concerns for the toxicity of this herbicide to fish populations inhabiting contaminated rivers.
2015-04-16 | GSE56855 | GEO
Project description:This study aimed to investigate the hepatic transcriptional response of brown trout to glyphosate, and its formulated product, Roundup. We exposed juvenile female brown trout to three concentrations of glyphosate (0.01, 0.5 and 10 mg/L) and Roundup (0.01, 0.5 and 10 mg/L glyphosate acid equivalent) for 14 days and sequenced the hepatic transcriptome of 6 individual females per treatment group in order to determine the global mechanisms of toxicity of this widely used herbicide. We assembled the brown trout transcriptome using an optimised de novo approach, and subsequent differential expression analysis identified a total of 1020 differentially-regulated transcripts across all treatments. Differentially-expressed transcripts included those encoding components of the antioxidant system, a number of stress-response proteins and pro-apoptotic signalling molecules. Functional analysis also revealed over-representation of pathways involved in regulation of cell-proliferation and turnover, and up-regulation of energy metabolism and other metabolic processes. Together, these transcriptional changes are consistent with generation of oxidative stress and the widespread induction of compensatory cellular stress response pathways. The mechanisms of toxicity identified were similar across both glyphosate and Roundup treatments, including for environmentally relevant concentrations. The significant alterations in transcript expression observed at the lowest concentrations tested raises concerns for the toxicity of this herbicide to fish populations inhabiting contaminated rivers. Fish were exposed to 3 concentrations of glyphosate (0.01, 0.1 and 10 mg/L), 3 concentrations of Roundup (0.01, 0.5 and 10 mg/L glyphosate acid equivalent) and water controls for 14 days. Liver mRNA from 6 replicate individuals per treatment was sequenced in an Illumina HiSeq 2500 platform. Two control groups (n=6 fish per group) were included. Using a de novo approach, we assembled the hepatic transcriptome for brown trout. Sequence reads were re-mapped to the assembled transcriptome using Bowtie2 and transcript expression profiling was conducted using EdgeR. ERCC spike controls were added to all individual samples, allowing for the assessment of the reproducibility and dynamic range for transcript expression quantification in our experiments. For the group exposed to 0.1 mg/L glyphosate, only 3 females were available to sequence and the variability between individuals was very high with 1 female identified as an outlier. For this reason, data from this treatment group was deemed unreliable and excluded from the analysis.
2015-04-16 | E-GEOD-56855 | biostudies-arrayexpress
Project description:The number and type of synthetic chemicals that are being produced worldwide continues to increase significantly. While these industrial chemicals provide numerous benefits, there is no doubt that some have potential to damage the environment and health. Toxicity must be evaluated and use must be carefully controlled and monitored in order to minimize potential damage. DNA microarray technology has become an important new technique in toxicology. We are using the yeast Saccharomyces cerevisiae as a model organism for toxicological study because it is a simple, fast-growing eukaryote that has been thoroughly characterized. In order to evaluate toxicity by newly synthesized or mixture chemicals, toxicity-induced gene expression alteration profiles by known chemicals should be collected. In our study, cells need to be exposed with same experimental cellular condition, semi lethal (IC50), respectively. In the case of round up (CAS; 40465-66-5), the exposure dose was decided as 1500 times dilution by growth curve with continuously diluted exposure. Roundup is the brand name of a systemic, broad-spectrum herbicide contains the active ingredient glyphosate. Glyphosate is classed as a moderately toxic herbicide and in EPA toxicity class III. // Genomic profile of roundup treatment of yeast using DNA microarray analysis: The herbicide Roundup, which contains glyphosate as the active ingredient, was first introduced in 1974 and has enjoyed widespread use in Japan and elsewhere in the world. Roundup-induced reactions occurring in the yeast Saccharomyces cerevisiae may have a predictive value for understanding responses in higher eukaryotes, and we applied yeast DNA microarray analysis for this purpose. Functional characterization of up-regulated open reading frames (ORFs) following Roundup treatment suggests that Roundup affects membrane structures and cellular organelles. Expression profiles induced by treatments with detergents, oils and hydrostatic pressure were similar to those following Roundup treatment based on cluster analysis. Glyphosate alone was not found to inhibit yeast growth at the concentration contained in the Roundup treatment used for microarray analysis. The toxicity of Roundup appeared to be due to detergent in the product. Keywords: stress response
2007-11-01 | GSE9362 | GEO
Project description:In this study we used non-targeted molecular profiling to provide insight into the extent of variation in the maize transcriptome, proteome and metabolome by analyzing replicas of two genetically modified and one isogenic maize genotype. Three white maize lines, the transgenic commercial Bt hybrid line DKC78-15 Bt (event MON810 from Monsanto), the transgenic commercial Roundup Ready (RR) line DKC78-35R (event NK603 from Monsanto) and its respective control line CRN 3505 (conventional from Monsanto) were grown in three consecutive years, and in two or three different locations in South Africa.
2010-05-16 | E-GEOD-15853 | biostudies-arrayexpress
Project description:Transcriptome analysis of liver and kidneys of rats chronically fed a NK603 Roundup-tolerant genetically modified maize [kidney]
| PRJNA298342 | ENA
Project description:Transcriptome analysis of liver and kidneys of rats chronically fed a NK603 Roundup-tolerant genetically modified maize [liver]
| PRJNA298341 | ENA