Project description:Transcriptional profiling of human epithelial cell line (HL) infected with Chlamydia penumoniae compared to control cells at time points 12h, 24h, 48h, 72h after the infection. Keywords: Chlamydia peneumoniae infection
Project description:Transcriptional profiling of human epithelial cell line (HL) infected with Chlamydia penumoniae compared to control cells at time points 12h, 24h, 48h, 72h after the infection. Experiment Overall Design: Two-condition experiment over the time. Biological replicates: 2 infected, 2 controls at each time point (12h, 24h, 48h, and 72h), independently grown.
Project description:We applied Formaldehyde-Assisted Isolation of Regulatory Elements enrichment followed by sequencing (FAIRE-Seq) to generate genome-wide temporal chromatin maps of Chlamydia trachomatis-infected human epithelial cells in vitro over the chlamydial developmental cycle. We detected both conserved and distinct temporal regions of chromatin accessibility associated with C. trachomatis infection. The observed differentially accessible chromatin regions, including several Clusters of Open Regulatory Elements (COREs) and temporally-enriched sets of transcription factors, may help shape the host cell response to infection. These regions and motifs were linked to genomic features and genes associated with immune responses, re-direction of host cell nutrients, intracellular signaling, cell-cell adhesion, extracellular matrix, metabolism and apoptosis. This work will serve as a basis for future functional studies of transcriptional regulation and epigenomic regulatory elements in Chlamydia-infected human cells.
Project description:To investigate the role of cell type-intrinsic gene expression to fibrotic sequelae of Chlamydia trachomatis (Ct) infection of the upper female genital tract, we compared the transcriptomic response of primary human endocervical epithelial cells (HCECs, see GSE198272) to that in vaginal epithelial cells (HVEs).
Project description:Here we examined gene expression from an in-vitro dual-RNA-seq experiment using Chlamydia trachomatis-infected HEp-2 epithelial cells. The experimental design consisted of three different multiplicity of infection ratio's (0.1, 1 and 10) across two different timeframes (1 and 24hrs), in addition to applying two different depletion methods (rRNA and rRNA + PolyA depletion). The aim was to examine and outline which MOI and depletion methods are most suited for bacterial-based infections.
Project description:TMT18-labeled proteome-wide profiling of post-translational modifications (phosphorylation) in mock-infected and infected human lung epithelial cells (A549). Human lung epithelial (A549) cells were infected and mock-infected with HCoV-229E. Cells were harvested at 8, 16, and 24 hours post-infection. Extracted proteins were digested with LysC + Trypsin, then TMT18-labeled and enriched for phosphorylation. Samples were split into 6 fractions and run on the Orbitrap Exploris 480. Data was searched with MS-GF+ using PNNL's DMS Processing pipeline.
Project description:TMT18-labeled proteome-wide profiling of post-translational modifications (acetylation) in mock-infected and infected human lung epithelial cells (A549). Human lung epithelial (A549) cells were infected and mock-infected with HCoV-229E. Cells were harvested at 8, 16, and 24 hours post-infection. Extracted proteins were digested with LysC + Trypsin, then TMT18-labeled and enriched for acetylation. Samples were split into 6 fractions and run on the Orbitrap Exploris 480. Data was searched with MS-GF+ using PNNL's DMS Processing pipeline.