Project description:RNA-seq was performed to compare the transcriptomes of Vibrio cholerae C6706 strains expressing V5-tagged wild-type CRP (CRP-V5) or the acetylation-mimicking mutant K52Q-V5 during growth in M9 minimal medium supplemented with 0.8% maltose or 0.8% trehalose as the sole carbon source. Overnight cultures grown in LB were washed and resuspended in the respective M9 media, then cultivated for approximately 3 hours to mid-exponential phase. Total RNA was extracted and subjected to stranded total RNA sequencing with ribosomal RNA depletion. This dataset complements ChIP-seq and RNA-seq data previously deposited under GSE310654 by examining CRP-dependent transcriptional responses under carbon source-specific conditions.
Project description:DNA methylation is a key epigenetic regulator in all domains of life, yet the effects of most bacterial DNA methyltransferases on cellular processes are largely undefined. Here, we used diverse techniques, including bisulfite sequencing, transcriptomics, and transposon insertion site sequencing to extensively characterize a 5-methylcytosine (5mC) methyltransferase, VchM, in the cholera pathogen, Vibrio cholerae. We have comprehensively defined VchM's DNA targets, its genetic interactions and the gene networks that it regulates. Although VchM is a relatively new component of the V. cholerae genome, it is required for optimal V. cholerae growth in vitro and during infection. Unexpectedly, the usually essential ÏE cell envelope stress pathway is dispensable in ÎvchM V. cholerae, likely due to its lower activation in this mutant and the capacity for VchM methylation to limit expression of some cell envelope modifying genes. Our work illuminates how an acquired DNA methyltransferase can become integrated within complex cell circuits to control critical housekeeping processes. Duplicates were used for all samples. For each strain background (C6706 and O395), there were control (Wildtype) samples and experimental samples (VchM knockout)
Project description:We used RNA-seq to determine transcriptional profiles of whole guts or IPCs isolated from guts infected with wild type or type VI secretion system deficient Vibrio cholerae. We found significant differences between guts and progenitor cells infected wild type or type VI secretion system deficient Vibrio cholerae.
