Project description:In order to elucidate on mRNA changes upon various proteotoxic stress conditions, synchronized WT (N2) worms were treated from L4 to day 1 of adulthood and collected for RNA extraction in the following
Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare NGS-derived transcriptome profiling (RNA-seq) and transposon insertion mutagenesis (Tnseq) libraries of Lon deletions compared to wt Caulobacter crescentus. Methods: See Methods section of The Lon protease links nucleotide metabolism with proteotoxic stress for information regarding methods or contact lead correspondence. Briefly, Samples for RNAseq were extracted from wt and lon deletion strains grown to mid exponential phase. Methods: See Methods section of The Lon protease links nucleotide metabolism with proteotoxic stress for information regarding methods or contact lead correspondence. Briefly, Samples for Tnseq were generated by Eztn5 transposon mutagenesis. Conclusions: Our study represents the first detailed analysis of lon deletion comparison to wt caulobacter transcriptomes, with biologic replicates, generated by RNA-seq technology.
Project description:Transcriptional and translational profiling of R. sphaeroides WT 2.4.1 under singlet oxygen stress compared to control (no stress) conditions
Project description:Transcriptional and translational profiling of R. sphaeroides WT 2.4.1 under singlet oxygen stress compared to control (no stress) conditions RNA samples collected at time-point zero and at different time-points after singlet oxygen stress were analyzed by two-color microarrays
Project description:By performing ribosome profiling on squamous cell carcinoma stem cells (either control or S51A mutant) we found that the ISR translationally regulates a network of centrosomal proteins to help cellular recovery upon proteotoxic stress.
Project description:Leiomyosarcoma (LMS) is an aggressive cancer with few therapeutic options. LMS cells are more sensitive to proteotoxic stress compared to normal smooth muscle cells. We used small compound 2c to induce proteotoxic stress and compare the transcriptomic adaptations of immortalized human uterine smooth muscle cells (HUtSMC) and LMS cells SK-UT-1. We found that the expression of the heat shock proteins (HSP) gene family is upregulated with higher efficiency in normal cells. In contrast, upregulation of BH3-only proteins is higher in LMS cells. HSF1, the master regulator of HSP transcription, is sequestered into transcriptionally incompetent nuclear foci only in LMS cells, which explains the lower HSP upregulation. We also found that several compounds can enhance the cell death response to proteotoxic stress. Specifically, when low doses were used, an inhibitor of salt-inducible kinases (SIKs) and the inhibitor of IRE1, a key element of the unfolded protein response (UPR), support proteotoxic-induced cell death with strength in LMS cells and without effects on the survival of normal cells. Overall, our data provide an explanation for the higher susceptibility of LMS cells to proteotoxic stress and suggest a potential option for co-treatment strategies.
Project description:To establish the overall cell responses to peroxisomal proteotoxic stress, we analysed transcriptomes of NT- and LONP2-silenced cells using RNA sequencing in COS-7 and U2OS cells.
Project description:Transcriptional profiling of Al activated gene under Al stress in tobacco WT and NtSTOP1-RNAi line. The roots were exposed to Al stressed conditions.