Project description:Expression profiles of wild-type and SgrR mutant E. coli strains under aMG and 2-DG-induced stress. Expression profiles of E. coli overexpressing SgrS sRNA.
Project description:Expression profiles of wild-type and SgrR mutant E. coli strains under aMG and 2-DG-induced stress. Expression profiles of E. coli overexpressing SgrS sRNA. Illumina RNA-Seq of total RNA extracted from wild-type, SgrR/SgrS mutant and SgrS overexpressing E. coli strains grown in different conditions.
Project description:Arsenic and mercury are known chemical hazards. The differences in effects from organic and inorganic forms of these toxic elements is less well understood, however. The nematode Caenorhabditis elegans (C. elegans) is a suitable model to investigate the toxicity of environmental hazards. In this study, the transcriptomic profiles of C. elegans exposed to inorganic mercury chloride (HgCl2) and sodium (meta)arsenite (NaAsO2) were assessed alongside organic methylmercury chloride (meHgCl) and dimethylarsinic acid (DMA). For this purpose, adult C. elegans were exposed for 24 h to NaAsO2 (10 µg/ml), DMA (200 µg/ml), HgCl2 (2 µg/ml), and meHgCl (0.5 µg/ml), concentrations that were equitoxic in juveniles for developmental delay. Whole genome gene expression profiles were determined by using Cellegans_UnrestrictedGE_G2519F_020186 Microarray (Agilent Technologies, Santa Clara, CA). The results showed significant changes in the transcriptome of adult C. elegans exposed to NaAsO2, DMA, HgCl2, or meHgCl relative to the control group (C. elegans treated with water). A total of 927 and 1221 differentially expressed genes (DEGs) were found in C. elegans treated with 10 µg/ml NaAsO2 or 200 µg/ml DMA, respectively. Interestingly, only 161 DEGs were in common for these two chemicals. Exposure to 2 µg/ml HgCl2 or 0.5 µg/ml meHgCl altered the expression of 670 and 485 genes, respectively, and out of these genes, 154 were commonly altered by the two treatments. Analysis of DEGs revealed that organic and inorganic forms of arsenic and mercury have different effects on the transcriptome of adult C. elegans.
Project description:Mature tRNA pools were measured using an adaptation of YAMAT-seq (Shigematsu et al., 2017; doi:10.1093/nar/gkx005 ) and further described in (Ayan et al., 2020; doi:10.7554/eLife.57947) in 10 strain-medium combinations (all strains dervied from the model bacterium E. coli MG1655). The aim of the experiment was to investigate the effect of reducing tRNA gene copy number on mature tRNA pools in rich and poor media.
Project description:Humans are exposed to both inorganic and organic mercury. While the toxicity of mercury is well established, much remains to be resolved about how different mercurials act at the molecular level. To address this issue, we employed a toxicogenomics approach using the nematode C. elegans. Using sub-, low- or high-toxic exposures of either HgCl2 or CH3HgCl the effects of these mercurials on steady-state mRNA levels for the entire genome were determined. A total of 473 and 2,865 genes were differentially expressed in the HgCl2 and CH3HgCl treatments, respectively. Hierarchical clustering, principal components and pattern analyses indicated that the transcriptional responses of the mercurials were unique.
Project description:Humans are exposed to both inorganic and organic mercury. While the toxicity of mercury is well established, much remains to be resolved about how different mercurials act at the molecular level. To address this issue, we employed a toxicogenomics approach using the nematode C. elegans. Using sub-, low- or high-toxic exposures of either HgCl2 or CH3HgCl the effects of these mercurials on steady-state mRNA levels for the entire genome were determined. A total of 473 and 2,865 genes were differentially expressed in the HgCl2 and CH3HgCl treatments, respectively. Hierarchical clustering, principal components and pattern analyses indicated that the transcriptional responses of the mercurials were unique. Mixed-stage C. elegans populations were exposed to 0, 2, 7.5 or 20 uM HgCl2 or 0, 0.75, 2, 7.5 uM CH3HgCl for 24 hours. Three independent experiments were performed for each treatment condition.