GEO DataSets

(Submitter supplied) Alphaproteobacteria commonly produce a polar adhesin that is anchored to the exterior of the cell envelope. In Caulobacter crescentus, this adhesin enables permanent attachment to solid surfaces and is known as the holdfast. An ensemble of two-component signal transduction (TCS) proteins control C. crescentus holdfast biogenesis by indirectly regulating expression of HfiA, a potent holdfast inhibitor. more...

Organism:

Caulobacter vibrioides CB15

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32211

8 Samples

Download data: CSV

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Caulobacter vibrioides CB15

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL32211

14 Samples

Download data

(Submitter supplied) Alphaproteobacteria commonly produce a polar adhesin that is anchored to the exterior of the cell envelope. In Caulobacter crescentus, this adhesin enables permanent attachment to solid surfaces and is known as the holdfast. An ensemble of two-component signal transduction (TCS) proteins control C. crescentus holdfast biogenesis by indirectly regulating expression of HfiA, a potent holdfast inhibitor. more...

Organism:

Caulobacter vibrioides CB15

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL32211

6 Samples

Download data: TXT

(Submitter supplied) We measured steady-state transcript levels in 1) wild-type C. crescentus, 2) an spdR response regulator deletion strain (ΔspdR), and an spdR phosphomimic strain (SpdR(D64E))

Organism:

Caulobacter vibrioides

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22063

9 Samples

Download data: TXT

(Submitter supplied) BarSeq experiment enriching for C. crescentus mutants that do not adhere to cheesecloth.

Organism:

Caulobacter vibrioides

Type:

Other

Platform:

GPL21015

30 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Caulobacter vibrioides CB15

Type:

Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platform:

GPL32211

63 Samples

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(Submitter supplied) During infection, transcriptional changes in both the phage and its host bacterium influence the outcome of infection. The xenobiotic response element (XRE) family of transcription factors (TFs), which are commonly encoded by bacteria and phages, regulate diverse aspects of bacterial cell physiology and can impact phage infection dynamics. Through a pangenome analysis of Caulobacter species isolated from soil and aquatic ecosystems, we uncovered an apparent radiation of an XRE TF gene cluster, several of which have established functions in the regulation of holdfast adhesin development and biofilm formation in C. more...

Organism:

Caulobacter vibrioides CB15

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32211

33 Samples

Download data: CSV

(Submitter supplied) During infection, transcriptional changes in both the phage and its host bacterium influence the outcome of infection. The xenobiotic response element (XRE) family of transcription factors (TFs), which are commonly encoded by bacteria and phages, regulate diverse aspects of bacterial cell physiology and can impact phage infection dynamics. Through a pangenome analysis of Caulobacter species isolated from soil and aquatic ecosystems, we uncovered an apparent radiation of an XRE TF gene cluster, several of which have established functions in the regulation of holdfast adhesin development and biofilm formation in C. more...

Organism:

Caulobacter vibrioides CB15

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL32211

30 Samples

Download data: TXT

(Submitter supplied) We sought to define the transcriptional regulon of the ChvI response regulator in Caulobacter crescentus. This study compares gene expression between ∆chvI cells and cells overexpressing the constitutively-active chvI(D52E) mutant. Our work provides a global view of the genes directly and indirectly regulated by the ChvGI two-component system in C. crescentus.

Organism:

Caulobacter vibrioides

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24555

12 Samples

Download data: TXT

(Submitter supplied) We report gene expression responses of Caulobacter crescentus to osmotic upshock (150 mM sucrose). The goal of this study is compare the transcriptional responses of wild type, sigT deletion, and gsrN overexpression (gsrN++) strains. The data provide a high resolution view of how two major regulators of the general stress response (sigT and gsrN) shape transcription upon shift to a hyperosmotic environment.

Organism:

Caulobacter vibrioides

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21015

31 Samples

Download data: TXT

(Submitter supplied) In E. faecalis OG1RF, disruption of the ahrC gene encoding a predicted ArgR family transcription factor results in a severe defect in biofilm formation in vitro, as well as significant attenuation of virulence in multiple experimental infection models. Using RNA-seq, we observed ahrC-dependent changes in expression of over 20 genes. AhrC-repressed genes included predicted determinants of arginine catabolism and several other metabolic genes and predicted transporters, while AhrC-activated genes included determinants involved in production of surface protein adhesins. more...

Organism:

Enterococcus faecalis

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL24867 GPL23172

12 Samples

Download data: TXT

(Submitter supplied) Progression through the Caulobacter cell cycle is driven by the master regulator CtrA, an essential two-component signaling protein that regulates the expression of nearly 100 genes. CtrA is abundant throughout the cell cycle except immediately prior to DNA replication. However, the expression of CtrA-activated genes is generally restricted to S-phase. We identify the conserved protein SciP (small CtrA inhibitory protein) and show that it accumulates during G1 where it inhibits CtrA from activating target genes. more...

Organism:

Caulobacter vibrioides CB15

Type:

Expression profiling by array

Platform:

GPL10469

4 Samples

Download data: TXT

(Submitter supplied) phyR encodes a general stress regulator protein that is conserved among several alpha-proteobacteria. This experiment is quantifying transcription in two Caulobacter strains: one strain is overexpressing phyR (gene CC3477); the other carries a phyR in-frame deletion. Both strains were cultured in M2 defined medium with xylose as the sole carbon source. The first strain (FC626) carries a plasmid integrated into the xylX locus; phyR is fused to the xylX promoter in this plasmid, generating a xylose-inducible phyR overexpression strain. more...

Organism:

Caulobacter vibrioides

Type:

Expression profiling by array

Platform:

GPL10149

4 Samples

Download data: CEL

(Submitter supplied) This experiment is testing the effects of coordinate overexpression of the lovK-lovR two-component system on gene expression in Caulobacter crescentus relative to an empty vector control strain.

Organism:

Caulobacter vibrioides

Type:

Expression profiling by array

Platform:

GPL10149

4 Samples

Download data: CEL

(Submitter supplied) Cell fate determination in the asymmetric bacterium Caulobacter crescentus (Caulobacter) is triggered by the localization of the developmental regulator SpmX to the old (stalked) cell pole during the G1-S transition. While SpmX is required to localize and activate the cell fate-determining kinase DivJ at the stalked pole in Caulobacter, it is also required for organelle (stalk) positioning in the cousin Asticaccaulis. more...

Organism:

Caulobacter vibrioides NA1000

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL21317

5 Samples

Download data: XLSX

(Submitter supplied) The purpose of this experiment was to examine the differential transcriptional profiles of Caulobacter CB15N grown in M2-Glucose versus M2-Inositol.

Organism:

Caulobacter vibrioides

Type:

Expression profiling by array

Platform:

GPL2749

2 Samples

Download data

(Submitter supplied) Supporting data for: Holtzendorff et. al., "Oscillating global regulators." Keywords = gcrA Keywords = global regulator Keywords: repeat sample

Organism:

Caulobacter vibrioides

Type:

Expression profiling by array

Platform:

GPL1076

13 Samples

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(Submitter supplied) Investigation of whole genome gene expression level changes in a Caulonacter crescentus NA1000 Plac::CCNA_00382 (ccrM) mutant, compared to the wild-type strain. The mutations engineered into this strain cause the CcrM DNA methyltransferase to be overexpressed and the chromosome to be constitutively methylated at the adenine at GANTC motifs. References of strains: CcrMOE: Collier, J. and Shapiro, L. more...

Organism:

Caulobacter vibrioides NA1000

Type:

Expression profiling by array

Platform:

GPL17931

6 Samples

Download data: PAIR

(Submitter supplied) Investigation of whole genome gene expression level changes in a Caulobacter crescentus NA1000 delta-CCNA_00382 (ccrM) mutant, compared to the wild-type strain. The mutations engineered into this strain render it incapable of methylating its genome on the adenine at GANTC motifs. References for strains : WT: Marks, M.E., Castro-Rojas, C.M., Teiling, C., Du, L., Kapatral, V., Walunas, T.L. and Crosson, S. more...

Organism:

Caulobacter vibrioides NA1000

Type:

Expression profiling by array

Platform:

GPL17931

6 Samples

Download data: PAIR

(Submitter supplied) CRISPR interference (CRISPRi) is a powerful new tool used in different organisms that provides a fast, specific, and reliable way to knockdown gene expression. Caulobacter crescentus is a well-studied model bacterium, and although a variety of genetic tools have been developed, it currently takes several weeks to delete or deplete individual genes, which significantly limits genetic studies. Here, we optimized a CRISPRi approach to specifically downregulate the expression of genes in C. more...

Organism:

Caulobacter vibrioides

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24555

4 Samples

Download data: WIG