Project description:The aim of the study was to compare the transcriptome of E. coli K12 MG1655 cells lacking genes known to induce the Rtc RNA repair system, such as gor, mazF and srmB, to wild-type cells. In all cases, less than 1% of the genes were found to be differentially expressed.
Project description:The aim of the study was to compare the transcriptome of E. coli K12 MG1655 cells lacking hydroperoxidase (Hpx-) and therefore unable to detoxify hydrogen peroxide, to wild-type cells; both when the Rtc RNA repair system is active and when it is inhibited; at 8 and 24 hpi. A very large number of genes (up to 1/3) were found to be differentially expressed in Hpx- as compared to wild-type. Inhibition of the Rtc system had dramatic effects on Hpx- but not on wild-type.
Project description:LrhA, YafC, YdcI, and YhaJ are LysR-type transcription regulator in Escherichia coli K12. In this study the transcriptomes of E. coli K12 strain U4 (MG1655 derivative, rph+ flhDC(IS1) dgcJ∷IS1 crl::IS1 ilvG+ ΔlacZ; Yilmaz et al. 2020, J. Bacteriol 203 e00427-20, https://doi.org/10.1128/JB.00427-20) and isogenic ΔlrhA, ΔyafC, ΔydcI, and ΔyhaJ mutants grown in Tryptone medium to OD600 0.8 were determined. The data revealed few loci that may be specifically affected in one deletion mutant only, while most differentially expressed loci were up or down regulated in several of the mutants.
Project description:The current study deals to decipher the antibacterial mechanism of lysozyme coated silver nanoparticles (L-Ag NPs) (coated with lysozyme) against a Gram negative modal organism Escherichia coli K12 (MTCC 1302). Hence, the whole transcriptome profiling of E. coli K12 was done by exposing it to the MIC75 concentration of L-Ag NPs for 5 and 30 min., by RNA sequencing (RNAseq) analysis. The obtained results were utilized to understand all the metabolic pathways, signaling and molecular functions in bacterial cells under the stress of L-Ag NPs. RNAseq showed a high number of total reads along with significant ratio of high-quality reads, which confirmed the excellent quality and quantity of the obtained RNAseq data. Controlled release of ions from the surface of L-Ag NPs allowed the bacterial cells to function normally till the accumulation of threshold amount of silver ions which triggered the action of defence system, thus, reducing the chances of resistance development in bacteria. In long term, such treatment may force the bacterial machinery to induce changes in their genome to counteract the situation and develop resistance against silver ions, similar to the well-known antibiotic resistance problem. The obtained results advocate that L-Ag NPs can be used as effective antibacterial agent.
